NERC Bursaries for Edinburgh Genomics Courses
Dear All We are pleased to announce we have a number of bursaries available to cover up-to the full fees of any of our upcoming bioinformatics courses. These bursaries are available to UK based students or researchers funded by the NERC or working on research that falls under the remit of the NERC (https://nerc.ukri.org/research/portfolio/remit/). Bursaries are available for any of our courses (see below) but are available for a LIMITED TIME ONLY: They are available for any course booked BEFORE 27th MARCH. So please don't wait to sign up! Our upcoming courses: Linux for Genomics, 13th March - An introduction to working on the command line, running commands and handling data relevant to bioinformatics. https://genomics.ed.ac.uk/services/linux-genomics R for Genomics, 14-15th March - An introduction to the statistical environment R, taking you from the very basics to writing basic functions and creating beautiful figures with ggplot2 https://genomics.ed.ac.uk/services/r-genomics Introduction to Python for Biologists, 18-22 March - This introductory course gives an overview of the language with an emphasis on practical problem-solving, using examples and exercises drawn from various aspects of bioinformatics work. https://genomics.ed.ac.uk/services/introduction-python-biologists-0 Data Manipulation and Visualisation with Python, 08 - 12 April - Python has a many high-quality libraries for working with scientific data. In this workshop we will see how to leverage these libraries to efficiently work with and visualise large volumes of data. https://genomics.ed.ac.uk/services/data-manipulation-and-visualisation-pytho... Introduction to RNA-seq Data Analysis, 9-10th May - This two-day course takes you through a tried-and-tested workflow for analysing RNA-seq data, from read mapping and QC to differential expression and result visualisation. https://genomics.ed.ac.uk/services/introduction-rna-seq-data-analysis If you think you are provably eligible for one of these bursaries, sign up to your desired course through the link provided and we will be in contact regarding fees. Kind Regards Nathan Medd Training and Outreach Manager - Edinburgh Genomics G.06, Ashworth Laboratories, Charlotte Auerbach Road, The King's Buildings, The University of Edinburgh, EH9 3FL, Edinburgh, Scotland Edinburgh Genomics' Privacy Notice can be viewed at: http://genomics.ed.ac.uk/about-us/privacy-notice This email and any attachments are confidential and intended solely for the use of the recipient(s) to whom they are addressed. If you have received it in error, please destroy all copies and inform the sender. The University of Edinburgh is a charitable body, registered in Scotland, with registration number SC005336.
There are still a handful of places left on our introductory bioinformatics courses running this March. Both cater for absolute beginners so do not fear if you have no previous coding experience: we've got you covered! And don't forget if you are funded by NERC, or work on research within their remit, we may be able to offer you a bursary to cover the cost of your course. Get in touch with us at this address. The courses Linux for Genomics - 13 March 2019 "Genomic studies produce vast amounts of data, usually in the form of very large text files. Linux is particularly suited to working with such files, and is therefore arguably one of the most important tools in a bioinformatician's toolkit. The Linux command-line enables one to view, filter and manipulate large text files that are difficult or impossible to handle with applications like Word or Excel, write pipelines to perform certain tasks, and run bioinformatics software for which no web interface is available. In this workshop we will first cover the most used Linux commands, followed by a short introduction to several popular command-line tools that were especially developed for genomics as well as file formats commonly used in genomics (BED, FASTA, FASTQ, GFF/GTF, SAM/BAM, VCF)." Duration: 1 day (9am - 5pm) Location: Ashworth Laboratories, Kings Buildings Edinburgh, EH9 3FL Spaces: 12 Cost: £225 More information: https://genomics.ed.ac.uk/services/linux-genomics Register: https://www.surveymonkey.co.uk/r/WNC23SS And R for Genomics 14-15th March 2019 "The aim of this course is to introduce participants to the statistical computing language 'R' using examples and skills relevant to genomic data science. This two day workshop is taught by experienced Edinburgh Genomics' bioinformaticians and trainers. By the end of the workshop, you will be comfortable with the basics of the R and R studio environments, learning about the rules of the language and how R works with different data types. We then move on to using functions, including those specific to genomic science. We look at how to handle various genomic data files and where to find relevant tools via online resources. Finally we use mock RNA-seq data to learn how to visualize your data to generate publication ready plots using the package ggplot2." Duration: 2 days (9am - 5pm) Location: Ashworth Laboratories, Kings Buildings Edinburgh, EH9 3FL Spaces: 12 Cost: £400 More information: https://genomics.ed.ac.uk/services/r-genomics Register: https://www.surveymonkey.co.uk/r/WJMTXNJ If you have any specific questions about these, or any other, courses at Edinburgh Genomics please contact our Training team at edge-training@ed.ac.uk<mailto:edge-training@ed.ac.uk> Not the courses you were looking for? Let us know what courses you would like to see us run in the future by filling out this quick training needs survey: https://www.surveymonkey.co.uk/r/7M6QB2D Kind Regards Nathan Medd The University of Edinburgh is a charitable body, registered in Scotland, with registration number SC005336.
We are excited to announce a brand new course at Edinburgh Genomics: Alignment, Analysis and Visualisation with Jalview. Jalview (www.jalview.org) is one of the most widely used applications for visualising and analysing DNA, RNA and protein multiple sequence alignments. It is designed to enable anyone working with protein, RNA and DNA sequences to investigate their structure, function and evolution, and create high-quality figures for publication. In a full day introductory workshop and a half-day advanced workshop, Jalview’s lead developer and outreach officer will take participants through a series of hands-on exercises covering all of Jalview’s key capabilities and latest features. Date: 29-30th April 2019 Location: JCMB 4325D, Kings Building, University of Edinburgh, EH9 3FL Introductory workshop (9-5pm Monday 29th April): Participants will learn about multiple sequence alignments and how to create, analyse and visualise them with the Jalview Desktop. A series of short talks, hands-on exercises and Q&A sessions allow participants to explore Jalview’s capabilities for working with phylogenetic trees, 3D structures and annotation from public databases. Advanced workshop (9-12.30pm Tuesday 30th April): Key topics in this workshop will be working with genomic variant data from Ensembl and Gnomad, scripting Jalview with Groovy, and taking advantage of UCSF Chimera’s 3D structure analysis capabilities in Jalview. Instructors: Jim Procter (U. Dundee), Suzanne Duce (U. Dundee). Who should attend: MRes/PhD students, researchers and educators unfamiliar with Jalview should attend the Introductory workshop on the 29th April. Experienced users need only attend the advanced workshop on 30th April to learn about newly added capabilities. Pre-requisites: Basic understanding of molecular biology and biochemistry. Equipment: Participants are encouraged to bring their own laptops (Windows/OSX/Linux) but logins will be provided for computers in the UoE IT Suite. Registration: Register<https://www.surveymonkey.co.uk/r/XCB2V86> for both workshops (29-30th April) £45.00 or Register<https://www.surveymonkey.co.uk/r/XP6MLL5> for advanced workshop only (Tuesday 30th April) £0.00 Jalview training is supported by the BBSRC and Wellcome Trust. Registration fees cover administration, lunch and refreshments. For more information consult the Edinburgh Genomics Training page here<http://genomics.ed.ac.uk/services/training> or get in contact with our training team at edge-training@ed.ac.uk Kind Regards Nathan Medd Training and Outreach Manager - Edinburgh Genomics -- [cid:part6.66B7F5AD.8FEB7F3D@ed.ac.uk] The University of Edinburgh is a charitable body, registered in Scotland, with registration number SC005336. The University of Edinburgh is a charitable body, registered in Scotland, with registration number SC005336.
There are still a handful of places left on our workshop: Bioinformatics for Genomics - 15-19 April 2019. "This is a week-long workshop that combines our popular ‘Linux for Genomics’, ‘R for Genomics’, and ‘Introduction to RNA-seq Data Analysis’, taught by Edinburgh Genomics’ Bioinformaticians. By the end of the five days, you will be: comfortable on the Linux command line; able to view, filter and manipulate large text files; able to write pipelines to perform certain bioinformatics tasks; familiar with and know and use the basics of R; confident using several data QC and processing tools; able to generate gene counts and differential expression statistics; and prepared to put it all together with visualization, interpretation, and gene set analysis." Duration: 5 days (9am - 5pm) Location: Peter Wilson Building, Kings Buildings Edinburgh, EH9 3JG Cost: £750 More information: https://genomics.ed.ac.uk/services/bioinformatics-genomics Register: https://www.surveymonkey.co.uk/r/96HC6YV Sign up soon to avoid disappointment! For more courses like this please see our bioinformatics training page here<https://genomics.ed.ac.uk/services/training>, or tell us what courses you would like us to deliver at our training needs survey here<https://www.surveymonkey.co.uk/r/7M6QB2D>. Kind Regards Nathan Medd Training and Outreach Manager - Edinburgh Genomics ======================================================== Edinburgh Genomics' Privacy Notice can be viewed at: http://genomics.ed.ac.uk/about-us/privacy-notice This email and any attachments are confidential and intended solely for the use of the recipient(s) to whom they are addressed. If you have received it in error, please destroy all copies and inform the sender. ======================================================== The University of Edinburgh is a charitable body, registered in Scotland, with registration number SC005336.
We are excited to announce a new course running next month here at Edinburgh Genomics: Network Analysis of High Dimensional Biological Data - 24th April This one day practical course is designed to introduce participants to the joys of networks, focusing on their application to biological research and in particular, their use in the analysis of complex data. The course will start by introducing the principles of networks and their use as a generic medium to understand the relationships between entities. It will then introduce participants to a new analysis platform, Graphia, going through the basics of its functionality for network visualisation and navigation, and demonstrating the tool‘s use in the exploration of large networks of protein interaction data and phylogenetic trees. Instructor: Prof Tom Freeman (Roslin Institute) Time: 9am - 5pm Price: £45 Location: JCMB 4325D, Peter Guthrie Tait Road, The King's Buildings, Edinburgh, EH9 3FD Who should attend: Graduates, postgraduates, and PIs, who work with large data matrices such as those generated by RNA-seq, single cell, proteomics, metaboloics analyses etc. For more information and a link to our registration form see our training site here.<https://genomics.ed.ac.uk/services/network-analysis-high-dimensional-biological-data> Kind Regards Nathan Medd Training and Outreach Manager - Edinburgh Genomics -- ======================================================== Edinburgh Genomics' Privacy Notice can be viewed at: http://genomics.ed.ac.uk/about-us/privacy-notice This email and any attachments are confidential and intended solely for the use of the recipient(s) to whom they are addressed. If you have received it in error, please destroy all copies and inform the sender. ======================================================== The University of Edinburgh is a charitable body, registered in Scotland, with registration number SC005336.
Hurry! There are still a few spaces available on this months Bioinformatics for Genomics workshop here at Edinburgh Genomics. Our ultimate introductory guide to bioinformatics using Linux and R. Bioinformatics for Genomics - 15-19 April 2019. "This is a week-long workshop that combines our popular ‘Linux for Genomics’, ‘R for Genomics’, and ‘Introduction to RNA-seq Data Analysis’, taught by Edinburgh Genomics’ Bioinformaticians. By the end of the five days, you will be: comfortable on the Linux command line; able to view, filter and manipulate large text files; able to write pipelines to perform certain bioinformatics tasks; familiar with and know and use the basics of R; confident using several data QC and processing tools; able to generate gene counts and differential expression statistics; and prepared to put it all together with visualization, interpretation, and gene set analysis." Duration: 5 days (9am - 5pm) Location: Peter Wilson Building, Kings Buildings Edinburgh, EH9 3JG Cost: £750 (including coffees and lunch) More information: https://genomics.ed.ac.uk/services/bioinformatics-genomics Register: https://www.surveymonkey.co.uk/r/96HC6YV Sign up soon to avoid disappointment! For more courses like this please see our bioinformatics training page here<https://genomics.ed.ac.uk/services/training>, or tell us what courses you would like us to deliver at our training needs survey here<https://www.surveymonkey.co.uk/r/7M6QB2D>. Kind Regards Nathan Medd Training and Outreach Manager - Edinburgh Genomics ======================================================== Edinburgh Genomics' Privacy Notice can be viewed at: http://genomics.ed.ac.uk/about-us/privacy-notice This email and any attachments are confidential and intended solely for the use of the recipient(s) to whom they are addressed. If you have received it in error, please destroy all copies and inform the sender. ======================================================== The University of Edinburgh is a charitable body, registered in Scotland, with registration number SC005336.
Most high-throughput bioinformatics work these days takes place on the Linux command line. The programs which do the majority of the computational heavy lifting — genome assemblers, read mappers, and annotation tools — are designed to work best when used with a command-line interface. Because the command line can be an intimidating environment, many biologists learn the bare minimum needed to get their analysis tools working. This means that they miss out on the power of Linux to customise their environment and automate many parts of the bioinformatics workflow. Sound familiar? Then consider attending: Introduction to Linux and Workflows for Biologists, 3 - 7 June 2019 This week-long course will introduce the Linux command line environment from scratch and teach students how to make the most of its tools to achieve a high level of productivity when working with biological data. Tutor: Martin Jones (Founder of Python for Biologists) Registration fee: £550 (includes coffee/tea, but no lunch) Location: Kings Buildings, University of Edinburgh, Edinburgh, EH9 3FL For more information on this course and to book your place visit https://genomics.ed.ac.uk/services/introduction-linux-and-workflows-biologis... Kind Regards Nathan Medd Training and Outreach Manager - Edinburgh Genomics Edinburgh Genomics' Privacy Notice can be viewed at: http://genomics.ed.ac.uk/about-us/privacy-notice This email and any attachments are confidential and intended solely for the use of the recipient(s) to whom they are addressed. If you have received it in error, please destroy all copies and inform the sender. The University of Edinburgh is a charitable body, registered in Scotland, with registration number SC005336.
Dear All We have an selection of exciting bioinformatics courses running this summer, from introductory workshops through more advanced techniques. All taught by experienced bioinformatics tutors, these courses will help you progress your skills quickly, ready for your next analysis project! Introduction to Python for Biologists - 8-12 July 2019 <https://genomics.ed.ac.uk/services/introduction-python-biologists-0> Python is a dynamic, readable language that is a popular platform for all types of bioinformatics work, from simple one-off scripts to large, complex software projects. This workshop is aimed at complete beginners and assumes no prior programming experience. It gives an overview of the language with an emphasis on practical problem-solving, using examples and exercises drawn from various aspects of bioinformatics work. Tutor: Dr Martin Jones (founder of Pythonforbiologists.com)<https://pythonforbiologists.com/> Registration fee: £550 (including lunches and refreshments) Register here<https://www.surveymonkey.com/r/SF7YRKX> Introduction to RNA-seq Data Analysis 5-7 August 2019<https://genomics.ed.ac.uk/services/introduction-rna-seq-data-analysis> RNA sequencing (RNA-seq) is the method of choice for transcriptome profiling. Nevertheless, it is a non-trivial task to transform the vast amount of data obtained with high-throughput sequencers into useful information. Thus, RNA-seq data analysis is still a major bottleneck for most researchers in this field. The ability of correctly interpreting RNA-seq results, as well as knowledge on the intrinsic properties of these data, are essential to avoid incorrect experimental designs and the application of inappropriate analysis methodologies. The aim of this workshop is to familiarise researchers with RNA-seq data and to initiate them in the analysis by providing lectures and practicals on analysis methodologies. In the practicals Illumina-generated sequencing data and various widely used software programs will be used. Tutors: Dr Frances Turner, Dr Urmi Trivedi Registration fee: £500 Register here<https://www.surveymonkey.co.uk/r/YDPZPSB> For more courses coming soon please check out our training web-page: https://genomics.ed.ac.uk/services/training Kind Regards Nathan Medd Training and Outreach Manager - Edinburgh Genomics -- ======================================================== Edinburgh Genomics' Privacy Notice can be viewed at: http://genomics.ed.ac.uk/about-us/privacy-notice This email and any attachments are confidential and intended solely for the use of the recipient(s) to whom they are addressed. If you have received it in error, please destroy all copies and inform the sender. ======================================================== The University of Edinburgh is a charitable body, registered in Scotland, with registration number SC005336.
We still have spaces on our bioinformatics courses running this summer. Sign up now for expert tuition to help guide you through your next bioinformatics challenge. Introduction to Python for Biologists - 8-12 July 2019 <https://genomics.ed.ac.uk/services/introduction-python-biologists-0> "Really excellent. I learned so much and have never loved coding so much." Python is a dynamic, readable language that is a popular platform for all types of bioinformatics work, from simple one-off scripts to large, complex software projects. This workshop is aimed at complete beginners and assumes no prior programming experience. It gives an overview of the language with an emphasis on practical problem-solving, using examples and exercises drawn from various aspects of bioinformatics work. Tutor: Dr Martin Jones (founder of Pythonforbiologists.com)<https://pythonforbiologists.com/> Registration fee: £550 (including refreshments) Register here<https://www.surveymonkey.com/r/SF7YRKX> Introduction to RNA-seq Data Analysis 5-7 August 2019<https://genomics.ed.ac.uk/services/introduction-rna-seq-data-analysis> *NEW THREE DAY FORMAT* RNA sequencing (RNA-seq) is the method of choice for transcriptome profiling. Nevertheless, it is a non-trivial task to transform the vast amount of data obtained with high-throughput sequencers into useful information. Thus, RNA-seq data analysis is still a major bottleneck for most researchers in this field. The ability of correctly interpreting RNA-seq results, as well as knowledge on the intrinsic properties of these data, are essential to avoid incorrect experimental designs and the application of inappropriate analysis methodologies. The aim of this workshop is to familiarise researchers with RNA-seq data and to initiate them in the analysis by providing lectures and practicals on analysis methodologies. In the practicals Illumina-generated sequencing data and various widely used software programs will be used. Tutors: Dr Frances Turner, Dr Urmi Trivedi Registration fee: £500 (including lunches and refreshments) Register here<https://www.surveymonkey.co.uk/r/YDPZPSB> For more courses coming soon please check out our training web-page: https://genomics.ed.ac.uk/services/training Hope to see you soon! Nathan Medd Training and Outreach Manager - Edinburgh Genomics -- ======================================================== Edinburgh Genomics' Privacy Notice can be viewed at: http://genomics.ed.ac.uk/about-us/privacy-notice This email and any attachments are confidential and intended solely for the use of the recipient(s) to whom they are addressed. If you have received it in error, please destroy all copies and inform the sender. ======================================================== The University of Edinburgh is a charitable body, registered in Scotland, with the registration number SC005336.
Dear All We have some brand new and exciting courses for you at Edinburgh Genomics. As well as there still being space left on some of our established courses we are delighted to be offering a brand new course this August in the form of our Metagenomics and Metabarcoding workshop. So what ever your experience, training needs, or budget, we have a course for you this summer! Metagenomics and Metabarcoding - 28-30 August 2019<https://genomics.ed.ac.uk/services/metagenomics-metabarcoding> *BRAND NEW* <https://genomics.ed.ac.uk/services/introduction-python-biologists-0> This course focuses on the computational methods used to analyse the wealth of data produced by shotgun metagenomics and metabarcoding (Amplicon targeted metagenomics) studies. This course will provide you insights in to DNA metabarcoding analyses, from preprocessing and quality control of the raw data to the construction of OTU/ASV tables, taxon assignment, diversity analysis and differential abundance analysis using QIIME2. Further, you will also learn about methods to generate the reference-based profile to generate microbial community features like taxonomic abundances or functional profile and how to identify the ones characterizing differences between two biological conditions. You will then be introduced to methods used for assembly from metagenomics samples. Attendees will use tools to assemble metagenome assembled genomes (MAGs) from short read and long read data. We will discuss the different approaches and tools available for these assemblies and the benefits and limitations of each options. Tutors: Urmi Trivedi, Bioinformatician, Edinburgh Genomics; Amanda Warr, Research Geneticist, Roslin Institute; Rob Stewart, Bioinformatician, Roslin Institute; Albert Phillimore, Institute of Evolutionary Biology, University of Edinburgh (guest lecturer); Nathan Medd, Training and Outreach Manager, Edinburgh Genomics (demonstrator) Registration fee: £500 (including lunches and refreshments) Where: Peter Wilson Building, The Kings Buildings, Edinburgh Register here<https://www.surveymonkey.co.uk/r/8MKKK96> Introduction to Python for Biologists - 8-12 July 2019 *SPACES REMAINING*<https://genomics.ed.ac.uk/services/introduction-python-biologists-0> <https://genomics.ed.ac.uk/services/introduction-python-biologists-0><https://genomics.ed.ac.uk/services/introduction-python-biologists-0> Python is a dynamic, readable language that is a popular platform for all types of bioinformatics work, from simple one-off scripts to large, complex software projects. This workshop is aimed at complete beginners and assumes no prior programming experience. It gives an overview of the language with an emphasis on practical problem-solving, using examples and exercises drawn from various aspects of bioinformatics work. Tutor: Dr Martin Jones (founder of Pythonforbiologists.com)<https://pythonforbiologists.com/> Registration fee: £550 (including refreshments) Where: James Clerk Maxwell Building, The Kings Buildings, Edinburgh Register here<https://www.surveymonkey.com/r/SF7YRKX> Network Analysis of High Dimensional Biological Data - 15 July 2019 <https://genomics.ed.ac.uk/services/network-analysis-high-dimensional-biological-data-15th-july-2019> *AT THE EDINBURGH BIOQUARTER* <https://genomics.ed.ac.uk/services/introduction-python-biologists-0><https://genomics.ed.ac.uk/services/introduction-python-biologists-0> This one day practical course is designed to introduce participants to the joys of networks, focusing on their application to biological research and in particular, their use in the analysis of complex data. The course will start by introducing the principles of networks and their use as a generic medium to understand the relationships between entities. It will then introduce participants to a new analysis platform, Graphia, going through the basics of its functionality for network visualisation and navigation, and demonstrating the tool‘s use in the exploration of large networks of protein interaction data and phylogenetic trees. Tutor: Prof Tom Freeman, Roslin Institute & Kajeka Registration fee: £45 (including lunch and refreshments) Where: Chancellors Building, BioQuarter (Little France Campus), Edinburgh Register here<https://www.surveymonkey.co.uk/r/H7PNDYF> Introduction to RNA-seq Data Analysis 5-7 August 2019 <https://genomics.ed.ac.uk/services/introduction-rna-seq-data-analysis> <https://genomics.ed.ac.uk/services/introduction-rna-seq-data-analysis> *NEW THREE-DAY FORMAT*<https://genomics.ed.ac.uk/services/introduction-rna-seq-data-analysis> <https://genomics.ed.ac.uk/services/introduction-python-biologists-0> RNA sequencing (RNA-seq) is the method of choice for transcriptome profiling. Nevertheless, it is a non-trivial task to transform the vast amount of data obtained with high-throughput sequencers into useful information. Thus, RNA-seq data analysis is still a major bottleneck for most researchers in this field. The ability of correctly interpreting RNA-seq results, as well as knowledge on the intrinsic properties of these data, are essential to avoid incorrect experimental designs and the application of inappropriate analysis methodologies. The aim of this workshop is to familiarise researchers with RNA-seq data and to initiate them in the analysis by providing lectures and practicals on analysis methodologies. In the practicals Illumina-generated sequencing data and various widely used software programs will be used. Tutors: Frances Turner, Urmi Trivedi, Nathan Medd Registration fee: £500 (including lunches and refreshments) Register here<https://www.surveymonkey.co.uk/r/YDPZPSB> For more courses coming soon please check out our training web-page: https://genomics.ed.ac.uk/services/training Kind Regards Nathan Medd Training and Outreach Manager - Edinburgh Genomics -- ======================================================== Edinburgh Genomics' Privacy Notice can be viewed at: http://genomics.ed.ac.uk/about-us/privacy-notice This email and any attachments are confidential and intended solely for the use of the recipient(s) to whom they are addressed. If you have received it in error, please destroy all copies and inform the sender. ======================================================== The University of Edinburgh is a charitable body, registered in Scotland, with registration number SC005336.
Dear All We have some had some spaces come available on our introductory Python coding course. This week-long course is a fantastic entry into the world of bioinformatics and will stand you in very good stead for all sorts of analysis challenges. This course starts next week so grab this last-minute opportunity! Introduction to Python for Biologists - 8-12 July 2019 *LAST FEW SPACES REMAINING*<https://genomics.ed.ac.uk/services/introduction-python-biologists-0> Python is a dynamic, readable language that is a popular platform for all types of bioinformatics work, from simple one-off scripts to large, complex software projects. This workshop is aimed at complete beginners and assumes no prior programming experience. It gives an overview of the language with an emphasis on practical problem-solving, using examples and exercises drawn from various aspects of bioinformatics work. Tutor: Dr Martin Jones (founder of Pythonforbiologists.com)<https://pythonforbiologists.com/> Registration fee: £550 (including refreshments) Where: James Clerk Maxwell Building, The Kings Buildings, Edinburgh Register here<https://www.surveymonkey.com/r/SF7YRKX> We also have some other great courses coming up covering metagenomics, network analysis, RNA-seq, and some introductory courses. Check out our website for more info! https://genomics.ed.ac.uk/services/training Kind Regards Nathan Medd Training and Outreach Manager - Edinburgh Genomics -- ======================================================== Edinburgh Genomics' Privacy Notice can be viewed at: http://genomics.ed.ac.uk/about-us/privacy-notice This email and any attachments are confidential and intended solely for the use of the recipient(s) to whom they are addressed. If you have received it in error, please destroy all copies and inform the sender. ======================================================== The University of Edinburgh is a charitable body, registered in Scotland, with registration number SC005336.
Dear All We are taking booking on a selection of online bioinformatics courses for the coming months, see below for details. Edinburgh University students/staff get to access these courses at the lowest pricing tier to make gaining new computational skills more accessible than ever! Introduction to Metagenomic Data Analysis, 17-19 March 2021, 10am - 3pm<https://genomics.ed.ac.uk/services/introduction-metagenomic-data-analysis> The ability to identify organisms from traces of genetic material in environmental samples has reshaped the way we see life on earth. Especially for microorganisms, where traditional identification is hard or near impossible, metagenomic techniques have granted us unprecedented insight into the microbiome of animals and the environment more broadly. In this course you will be introduced to methods used for assembly from metagenomics samples. Attendees will use tools to assemble metagenome assembled genomes (MAGs) from short read and long read data. We will discuss the different approaches and tools available for these assemblies and the benefits and limitations of each options. Tutors: Urmi Trivedi (Bioinformatician, Edinburgh Genomics) Nathan Medd (Training Manager, Edinburgh Genomics) Registration fee: £250/£263/£325 (UoE/Other Uni/Industry) <https://genomics.ed.ac.uk/services/variant-analysis> Variant Analysis, 23-26 March, 9am - 3pm<https://genomics.ed.ac.uk/services/variant-analysis> This course aims to provide an introduction to the principles of short variant discovery (both germline and somatic) from short read data. We will look at a complete workflow, from data QC to functional interpretation of variant calls. The practical sessions will focus on running the GATK pipeline from the Broad institute (https://gatk.broadinstitute.org/hc/en-us). Tutors: Frances Turner (Bioinformatician, Edinburgh Genomics), Urmi Trivedi (Bioinformatician, Edinburgh Genomics) Registration fee: £250/£263/£325 (UoE/Other Uni/Industry) Introduction to RNA-seq Data Analysis, 26-29 April 2021, 9.30am - 3.30pm <https://genomics.ed.ac.uk/services/rna-seq-data-analysis> RNA sequencing (RNA-seq) is the method of choice for transcriptome profiling. Nevertheless, it is a non-trivial task to transform the vast amount of data obtained with high-throughput sequencers into useful information. Thus, RNA-seq data analysis is still a major bottleneck for most researchers in this field. The ability of correctly interpreting RNA-seq results, as well as knowledge on the intrinsic properties of these data, are essential to avoid incorrect experimental designs and the application of inappropriate analysis methodologies. The aim of this workshop is to familiarise researchers with RNA-seq data and to initiate them in the analysis by providing lectures and practicals on analysis methodologies. In the practicals Illumina-generated sequencing data and various widely used software programs will be used. Tutors: Frances Turner (Bioinformatician, Edinburgh Genomics), Urmi Trivedi (Bioinformatician, Edinburgh Genomics) Nathan Medd (Training Manager, Edinburgh Genomics) Registration fee: £250/£263/£325 (UoE/Other Uni/Industry) For more courses coming soon please check out our training web-page: https://genomics.ed.ac.uk/services/training Kind Regards Nathan Medd -- Training and Outreach Manager - Edinburgh Genomics ======================================================== Edinburgh Genomics' Privacy Notice can be viewed at: http://genomics.ed.ac.uk/about-us/privacy-notice This email and any attachments are confidential and intended solely for the use of the recipient(s) to whom they are addressed. If you have received it in error, please destroy all copies and inform the sender. ======================================================== The University of Edinburgh is a charitable body, registered in Scotland, with registration number SC005336. Is e buidheann carthannais a th’ ann an Oilthigh Dhùn Èideann, clàraichte an Alba, àireamh clàraidh SC005336.
Dear All We have another few courses up and running here at Edinburgh Genomics this spring: see below for details and how to sign up! Introduction to Python for Biologists, 5-7&10-12 May 2021, 9.30am - 4.30pm<https://genomics.ed.ac.uk/services/introduction-python-biologists-0> Python is a dynamic, readable language that is a popular platform for all types of bioinformatics work, from simple one-off scripts to large, complex software projects. This workshop is aimed at complete beginners and assumes no prior programming experience. It gives an overview of the language with an emphasis on practical problem-solving, using examples and exercises drawn from various aspects of bioinformatics work. The workshop is structured so that the parts of the language most useful for bioinformatics are introduced as early as possible, and that students can start writing plausibly-useful programs after the first few sessions. After completing the workshop, students should be in a position to (1) apply the skills they have learned to tackling problems in their own research and (2) continue their Python education in a self-directed way. Tutors: Tim Booth (Bioinformatician/Programmer, Edinburgh Genomics), Nathan Medd (Training Manager, Edinburgh Genomics) Registration fee: £450/£473/£585 (UoE/Other Uni/Industry) <https://genomics.ed.ac.uk/services/long-read-bioinformatics> Long-read Bioinformatics, 17 - 19 May 2021, 10am - 3pm<https://genomics.ed.ac.uk/services/long-read-bioinformatics> RNA sequencing (RNA-seq) is the method of choice for transcriptome profiling. Nevertheless, it is a non-trivial task to transform the vast amount of data obtained with high-throughput sequencers into useful information. Thus, RNA-seq data analysis is still a major bottleneck for most researchers in this field. The ability of correctly interpreting RNA-seq results, as well as knowledge on the intrinsic properties of these data, are essential to avoid incorrect experimental designs and the application of inappropriate analysis methodologies. The aim of this workshop is to familiarise researchers with RNA-seq data and to initiate them in the analysis by providing lectures and practicals on analysis methodologies. In the practicals Illumina-generated sequencing data and various widely used software programs will be used. Tutors: Frances Turner (Bioinformatician, Edinburgh Genomics), Urmi Trivedi (Bioinformatician, Edinburgh Genomics) Nathan Medd (Training Manager, Edinburgh Genomics) Registration fee: £150/£158/£195 (UoE/Other Uni/Industry) Introduction to Metagenomic Data Analysis, 31 May - 2 June 2021, 10am - 3pm <https://genomics.ed.ac.uk/services/introduction-metagenomic-data-analysis> (Rescheduled from March<https://genomics.ed.ac.uk/services/introduction-metagenomic-data-analysis>)<https://genomics.ed.ac.uk/services/introduction-metagenomic-data-analysis> The ability to identify organisms from traces of genetic material in environmental samples has reshaped the way we see life on earth. Especially for microorganisms, where traditional identification is hard or near impossible, metagenomic techniques have granted us unprecedented insight into the microbiome of animals and the environment more broadly. In this course you will be introduced to methods used for assembly from metagenomics samples. Attendees will use tools to assemble metagenome assembled genomes (MAGs) from short read and long read data. We will discuss the different approaches and tools available for these assemblies and the benefits and limitations of each options. Tutors: Urmi Trivedi (Bioinformatician, Edinburgh Genomics) Nathan Medd (Training Manager, Edinburgh Genomics) Registration fee: £250/£263/£325 (UoE/Other Uni/Industry) For more courses coming soon please check out our training web-page: https://genomics.ed.ac.uk/services/training Kind Regards Nathan Medd -- Training and Outreach Manager - Edinburgh Genomics ======================================================== Edinburgh Genomics' Privacy Notice can be viewed at: http://genomics.ed.ac.uk/about-us/privacy-notice This email and any attachments are confidential and intended solely for the use of the recipient(s) to whom they are addressed. If you have received it in error, please destroy all copies and inform the sender. ======================================================== The University of Edinburgh is a charitable body, registered in Scotland, with registration number SC005336. Is e buidheann carthannais a th’ ann an Oilthigh Dhùn Èideann, clàraichte an Alba, àireamh clàraidh SC005336.
Dear All The Next Generation Bioinformatics User Group (NextGenBUG) is a user-driven meeting programme that aims to build an engaged user community in Scotland (and beyond) of researchers and others analysing or exploiting large-volume data in biology. It has a major, but non-exclusive, focus on "next-generation" sequence data analyses and interpretation. Working together, we try to figure out the best ways of extracting the meaning of the massive amounts of data emerging from ultra-high-throughput technologies such as Illumina, PacBio and Oxford Nanopore. Our next meeting will be hosted by Edinburgh Genomics and held online on Friday 30th April 2021, from 1pm through 4pm. You can join us in online here from 12.30pm that day, no sign-up necessary: https://eu.bbcollab.com/guest/7895ec98c24646d1a586c4b6011a697d Please see a provisional timetable below: Speaker Time Topic Nathan Medd 13:00 – 13:20 Welcome Mark Blaxter 13:20 – 14:00 Darwin ToL project Peter Thorpe 14:00 – 14:20 PacBio assembly of an EXTREMELY heterozygous nematode Catalina Vallejos 14:20 – 14:40 EdDash Project - UKRI funded bioinformatics training at UoE Coffee 14:40 – 15:00 Bas Tolhuis 15:00 – 15:20 PacBio Informatics Daniel Barker 15:20 – 15:40 4273π - Teaching Bioinformatics in Schools Javier Santoyo-Lopez 15:40 – 16:00 Edinburgh Genomics News Group Discussion (optional) 16:00 – 17:00 Future of NGB For more information please see our website: https://www.nextgenbug.org/ Look forward to seeing you online! Kind Regards Nathan Medd -- Training and Outreach Manager - Edinburgh Genomics ======================================================== Edinburgh Genomics' Privacy Notice can be viewed at: http://genomics.ed.ac.uk/about-us/privacy-notice This email and any attachments are confidential and intended solely for the use of the recipient(s) to whom they are addressed. If you have received it in error, please destroy all copies and inform the sender. ======================================================== The University of Edinburgh is a charitable body, registered in Scotland, with registration number SC005336. Is e buidheann carthannais a th’ ann an Oilthigh Dhùn Èideann, clàraichte an Alba, àireamh clàraidh SC005336.
Hey All! Please join us for this free bioinformatics meeting this afternoon. We have some great speakers and discussion about all things bioinformatics. We've had a slight technical and have had to change the link. Our new classroom can be found here: Hey all. Bit of technical and we've had to change classrooms. We are now here: https://eu.bbcollab.com/guest/60eb11fccc4c4e8494b138877be8a283 Hopefully see you online shortly! Kind Regards Edinburgh Genomics On 16/04/2021 15:53, TRAIN edgenomics-training wrote: Dear All The Next Generation Bioinformatics User Group (NextGenBUG) is a user-driven meeting programme that aims to build an engaged user community in Scotland (and beyond) of researchers and others analysing or exploiting large-volume data in biology. It has a major, but non-exclusive, focus on "next-generation" sequence data analyses and interpretation. Working together, we try to figure out the best ways of extracting the meaning of the massive amounts of data emerging from ultra-high-throughput technologies such as Illumina, PacBio and Oxford Nanopore. Our next meeting will be hosted by Edinburgh Genomics and held online on Friday 30th April 2021, from 1pm through 4pm. You can join us in online here from 12.30pm that day, no sign-up necessary: https://eu.bbcollab.com/guest/7895ec98c24646d1a586c4b6011a697d Please see a provisional timetable below: Speaker Time Topic Nathan Medd 13:00 – 13:20 Welcome Mark Blaxter 13:20 – 14:00 Darwin ToL project Peter Thorpe 14:00 – 14:20 PacBio assembly of an EXTREMELY heterozygous nematode Catalina Vallejos 14:20 – 14:40 EdDash Project - UKRI funded bioinformatics training at UoE Coffee 14:40 – 15:00 Bas Tolhuis 15:00 – 15:20 PacBio Informatics Daniel Barker 15:20 – 15:40 4273π - Teaching Bioinformatics in Schools Javier Santoyo-Lopez 15:40 – 16:00 Edinburgh Genomics News Group Discussion (optional) 16:00 – 17:00 Future of NGB For more information please see our website: https://www.nextgenbug.org/ Look forward to seeing you online! Kind Regards Nathan Medd -- Training and Outreach Manager - Edinburgh Genomics ======================================================== Edinburgh Genomics' Privacy Notice can be viewed at: http://genomics.ed.ac.uk/about-us/privacy-notice This email and any attachments are confidential and intended solely for the use of the recipient(s) to whom they are addressed. If you have received it in error, please destroy all copies and inform the sender. ======================================================== -- Training and Outreach Manager - Edinburgh Genomics ======================================================== Edinburgh Genomics' Privacy Notice can be viewed at: http://genomics.ed.ac.uk/about-us/privacy-notice This email and any attachments are confidential and intended solely for the use of the recipient(s) to whom they are addressed. If you have received it in error, please destroy all copies and inform the sender. ======================================================== The University of Edinburgh is a charitable body, registered in Scotland, with registration number SC005336. Is e buidheann carthannais a th’ ann an Oilthigh Dhùn Èideann, clàraichte an Alba, àireamh clàraidh SC005336.
Dear All We are pleased to say bookings for a range of Edinburgh Genomics online courses, running this Summer/Autumn, are now open! Details below and on our website<https://genomics.ed.ac.uk/services/training>. Any questions about up coming courses check our FAQ page<https://genomics.ed.ac.uk/services/training-faqs> or get in contact with our training team<edge-training@ed.ac.uk>. Kind Regards Nathan Medd (Training Manager - Edinburgh Genomics) ---------------------------------------------------------------------------------------------------- RNA-seq Data Analysis 27-29 August (9.30am - 3.30pm) <https://genomics.ed.ac.uk/services/rna-seq-data-analysis> - Last few spaces remaining! RNA sequencing (RNA-seq) is the method of choice for transcriptome profiling. Nevertheless, it is a non-trivial task to transform the vast amount of data obtained with high-throughput sequencers into useful information. Thus, RNA-seq data analysis is still a major bottleneck for most researchers in this field. The ability of correctly interpreting RNA-seq results, as well as knowledge on the intrinsic properties of these data, are essential to avoid incorrect experimental designs and the application of inappropriate analysis methodologies.The aim of this workshop is to familiarise researchers with RNA-seq data and to initiate them in the analysis by providing lectures and practicals on analysis methodologies. In the practicals Illumina-generated sequencing data and various widely used software programs will be used. Tutors: Urmi Trivedi (Bioinformatician, Edinburgh Genomics), Frances Turner (Bioinformatician, Edinburgh Genomics), and Nathan Medd (Training Manager, Edinburgh Genomics) Registration fee: £250/£263/£325 (UoE staff or student/Other University staff or student/Industry staff) ---------------------------------------------------------------------------------------------------- R for Biologists 13-17 September (1-5pm) <https://genomics.ed.ac.uk/services/r-biologists> The aim of this course is to introduce participants to the statistical computing language 'R' using examples and skills relevant to biological data science. This online workshop is taught by experienced Edinburgh Genomics’ trainers. By the end of the workshop, you will be comfortable with the basics of the R and R studio environments, learning about the rules of the language and how R works with different data types and structures. We then move on to using functions, introducing a selection of packages for biological data science. We then focus on data handling and tidying datasets using the 'tidyverse' family of packages. Finally we learn how to visualise your data to generate publication ready plots using the package ggplot2. Intructors: Nathan Medd (Training Manager), Donald Dunbar (Head of Bioinformatics) Registration fee:£250/£263/£325 (UoE staff or student/Other University staff or student/Industry staff) ---------------------------------------------------------------------------------------------------- Introduction to Metagenomic Data Analysis, 21-23 September (10am - 3pm)<https://genomics.ed.ac.uk/services/introduction-metagenomic-data-analysis> The ability to identify organisms from traces of genetic material in environmental samples has reshaped the way we see life on earth. Especially for microorganisms, where traditional identification is hard or near impossible, metagenomic techniques have granted us unprecedented insight into the microbiome of animals and the environment more broadly. In this course you will be introduced to methods used for assembly from metagenomics samples. Attendees will use tools to assemble metagenome assembled genomes (MAGs) from short read and long read data. We will discuss the different approaches and tools available for these assemblies and the benefits and limitations of each options. Tutors: Urmi Trivedi (Bioinformatician, Edinburgh Genomics) Nathan Medd (Training Manager, Edinburgh Genomics) Registration fee: £250/£263/£325 (UoE staff or student/Other University staff or student/Industry staff) ---------------------------------------------------------------------------------------------------- Variant Analysis, 27-30 September (9am - 3pm)<https://genomics.ed.ac.uk/services/variant-analysis> This course aims to provide an introduction to the principles of short variant discovery (both germline and somatic) from short read data. We will look at a complete workflow, from data QC to functional interpretation of variant calls. The practical sessions will focus on running the GATK pipeline from the Broad institute (https://gatk.broadinstitute.org/hc/en-us). Tutors: Frances Turner (Bioinformatician, Edinburgh Genomics), Urmi Trivedi (Bioinformatician, Edinburgh Genomics) Registration fee: £250/£263/£325 (UoE staff or student/Other University staff or student/Industry staff) ---------------------------------------------------------------------------------------------------- Long-read Bioinformatics, 11-13 October (10am-3pm)<https://genomics.ed.ac.uk/services/long-read-bioinformatics> Whole genome sequencing (WGS) has been revolutionised by the development of long-read sequencing technologies in the last few years. Driven in no small part by Oxford Nanopore technologies (https://nanoporetech.com/), we now have the ability to sequence long (mb+) single-molecule DNA fragments. Although these developments are expected to alleviate numerous computational challenges surrounding genome analysis they also bring some interesting bioinformatics challenges to which we have to adapt in order to get the most from this powerful technology. This exciting new course aims to introduce the principles and practice using long-read data analysis with focus on Oxford Nanopore data. We will present the cutting edge software and best practices tried and tested by our expert bioinformaticians here at Edinburgh Genomics. Instructor: Urmi Trivedi - Bioinformatician, Edinburgh Genomics Registration fee: £150/£158/£195 (UoE staff or student/Other University staff or student/Industry staff) ---------------------------------------------------------------------------------------------------- Introduction to Linux for Genomics, 1-2 November (1-5pm) <https://genomics.ed.ac.uk/services/introduction-linux-genomics-virtual-edition-0> Genomic studies produce vast amounts of data, usually in the form of very large text files. Linux is particularly suited to working with such files and is therefore arguably one of the most important tools in a bioinformatician’s toolkit. The Linux command-line enables one to view, filter and manipulate large text files that are difficult or impossible to handle with applications like Word or Excel, write pipelines to perform certain tasks, and run bioinformatics software for which no web interface is available. In this workshop, we will first cover the most used Linux commands, followed by a short introduction to several popular command-line tools that were specially developed for genomics as well as file formats commonly used in genomics (BED, FASTA, FASTQ, GFF/GTF, SAM/BAM, VCF). Instructors: Tim Booth and Nathan Medd (Edinburgh Genomics Bioinformatics team) Registration fee: £75/£79/£95 (UoE staff or student/Other University staff or student/Industry staff) -- ======================================================== Edinburgh Genomics' Privacy Notice can be viewed at: http://genomics.ed.ac.uk/about-us/privacy-notice This email and any attachments are confidential and intended solely for the use of the recipient(s) to whom they are addressed. If you have received it in error, please destroy all copies and inform the sender. ======================================================== The University of Edinburgh is a charitable body, registered in Scotland, with registration number SC005336. Is e buidheann carthannais a th’ ann an Oilthigh Dhùn Èideann, clàraichte an Alba, àireamh clàraidh SC005336.
Dear All We have some great online courses scheduled for the next couple of months: check out our website for more info and for new courses as they're released. Also, please do forward to any budding bioinformaticians you may know! Kind Regards Nathan Introduction to Python for Biologists 22-29 March (09.30 - 16.30)<https://genomics.ed.ac.uk/services/introduction-python-biologists-0> Python is a dynamic, readable language that is a popular platform for all types of bioinformatics work, from simple one-off scripts to large, complex software projects. This workshop is aimed at complete beginners and assumes no prior programming experience. It gives an overview of the language with an emphasis on practical problem-solving, using examples and exercises drawn from various aspects of bioinformatics work. The workshop is structured so that the parts of the language most useful for bioinformatics are introduced as early as possible, and that students can start writing plausibly-useful programs after the first few sessions. After completing the workshop, students should be in a position to (1) apply the skills they have learned to tackling problems in their own research and (2) continue their Python education in a self-directed way. Tutor: Tim Booth (Edinburgh Genomics) Registration fee: £450/£473/£585 (UoE staff or student/Other University staff or student/Industry staff) Where: Online ---------------------------------------------------------------------------------------------------- R for Biologists 4 - 6 April (09.30 - 15.30) <https://genomics.ed.ac.uk/services/r-biologists> The aim of this course is to introduce participants to the statistical computing language 'R' using examples and skills relevant to biological data science. This online workshop is taught by experienced Edinburgh Genomics’ trainers. By the end of the workshop, you will be comfortable with the basics of the R and R studio environments, learning about the rules of the language and how R works with different data types and structures. We then move on to using functions, introducing a selection of packages for biological data science. We then focus on data handling and tidying datasets using the 'tidyverse' family of packages. Finally we learn how to visualise your data to generate publication ready plots using the package ggplot2. Tutor: Nathan Medd (Training Manager) Registration fee:£250/£263/£325 (UoE staff or student/Other University staff or student/Industry staff) Where: Online ---------------------------------------------------------------------------------------------------- RNA-seq Data Analysis 25-28 April (09.30 - 15.30) <https://genomics.ed.ac.uk/services/rna-seq-data-analysis> RNA sequencing (RNA-seq) is the method of choice for transcriptome profiling. Nevertheless, it is a non-trivial task to transform the vast amount of data obtained with high-throughput sequencers into useful information. Thus, RNA-seq data analysis is still a major bottleneck for most researchers in this field. The ability of correctly interpreting RNA-seq results, as well as knowledge on the intrinsic properties of these data, are essential to avoid incorrect experimental designs and the application of inappropriate analysis methodologies.The aim of this workshop is to familiarise researchers with RNA-seq data and to initiate them in the analysis by providing lectures and practicals on analysis methodologies. In the practicals Illumina-generated sequencing data and various widely used software programs will be used. Tutors: Urmi Trivedi (Bioinformatician, Edinburgh Genomics), Frances Turner (Bioinformatician, Edinburgh Genomics), and Nathan Medd (Training Manager, Edinburgh Genomics) Registration fee: £250/£263/£325 (UoE staff or student/Other University staff or student/Industry staff) Where: Online -- Training and Outreach Manager - Edinburgh Genomics ======================================================== Edinburgh Genomics' Privacy Notice can be viewed at: http://genomics.ed.ac.uk/about-us/privacy-notice This email and any attachments are confidential and intended solely for the use of the recipient(s) to whom they are addressed. If you have received it in error, please destroy all copies and inform the sender. ======================================================== The University of Edinburgh is a charitable body, registered in Scotland, with registration number SC005336. Is e buidheann carthannais a th’ ann an Oilthigh Dhùn Èideann, clàraichte an Alba, àireamh clàraidh SC005336.
Coming to Genome Science 2019<http://genomescience.co.uk/> in Edinburgh this September? Why not complete your conference week with an introduction to the world of Network Analysis with Graphia<https://kajeka.com/graphia/>. See below for this and some other great courses coming up in the next few months, including another of our ever-popular 'Bioinformatics for Genomics'! ... Introduction to RNA-seq Data Analysis 5-7 August 2019 <https://genomics.ed.ac.uk/services/introduction-rna-seq-data-analysis> *NEW THREE-DAY FORMAT*<https://genomics.ed.ac.uk/services/introduction-rna-seq-data-analysis> <https://genomics.ed.ac.uk/services/introduction-python-biologists-0> RNA sequencing (RNA-seq) is the method of choice for transcriptome profiling. Nevertheless, it is a non-trivial task to transform the vast amount of data obtained with high-throughput sequencers into useful information. Thus, RNA-seq data analysis is still a major bottleneck for most researchers in this field. The ability of correctly interpreting RNA-seq results, as well as knowledge on the intrinsic properties of these data, are essential to avoid incorrect experimental designs and the application of inappropriate analysis methodologies. The aim of this workshop is to familiarise researchers with RNA-seq data and to initiate them in the analysis by providing lectures and practicals on analysis methodologies. In the practicals Illumina-generated sequencing data and various widely used software programs will be used. Tutors: Urmi Trivedi, Bioinformatician, Edinburgh Genomics; Frances Turner, Bioinformatician, Edinburgh Genomics; Nathan Medd, Training and Outreach Manager, Edinburgh Genomics (demonstrator) Registration fee: £500 (including lunches and refreshments) Register here<https://www.surveymonkey.co.uk/r/YDPZPSB> Metagenomics and Metabarcoding - 28-30 August 2019<https://genomics.ed.ac.uk/services/metagenomics-metabarcoding> *BRAND NEW* <https://genomics.ed.ac.uk/services/introduction-python-biologists-0> This course focuses on the computational methods used to analyse the wealth of data produced by shotgun metagenomics and metabarcoding (Amplicon targeted metagenomics) studies. This course will provide you insights in to DNA metabarcoding analyses, from preprocessing and quality control of the raw data to the construction of OTU/ASV tables, taxon assignment, diversity analysis and differential abundance analysis using QIIME2. Further, you will also learn about methods to generate the reference-based profile to generate microbial community features like taxonomic abundances or functional profile and how to identify the ones characterizing differences between two biological conditions. You will then be introduced to methods used for assembly from metagenomics samples. Attendees will use tools to assemble metagenome assembled genomes (MAGs) from short read and long read data. We will discuss the different approaches and tools available for these assemblies and the benefits and limitations of each options. Tutors: Urmi Trivedi, Bioinformatician, Edinburgh Genomics; Amanda Warr, Research Geneticist, Roslin Institute; Rob Stewart, Bioinformatician, Roslin Institute; Albert Phillimore, Institute of Evolutionary Biology, University of Edinburgh (guest lecturer); Nathan Medd, Training and Outreach Manager, Edinburgh Genomics (demonstrator) Registration fee: £500 (including lunches and refreshments) Where: Peter Wilson Building, The Kings Buildings, Edinburgh Register here<https://www.surveymonkey.co.uk/r/8MKKK96> Network Analysis of High Dimensional Biological Data - 6th September 2019 <https://genomics.ed.ac.uk/services/network-analysis-high-dimensional-biological-data-15th-july-2019> *Following the Edinburgh Genome Science Conference (http://genomescience.co.uk/)* <https://genomics.ed.ac.uk/services/introduction-python-biologists-0><https://genomics.ed.ac.uk/services/introduction-python-biologists-0> This one day practical course is designed to introduce participants to the joys of networks, focusing on their application to biological research and in particular, their use in the analysis of complex data. The course will start by introducing the principles of networks and their use as a generic medium to understand the relationships between entities. It will then introduce participants to a new analysis platform, Graphia, going through the basics of its functionality for network visualisation and navigation, and demonstrating the tool‘s use in the exploration of large networks of protein interaction data and phylogenetic trees. Tutor: Prof Tom Freeman, Roslin Institute & Kajeka Registration fee: £45 (including lunch and refreshments) Where: James Clerk Maxwell Building, The Kings Buildings, Edinburgh. Register here<https://www.surveymonkey.co.uk/r/H7PNDYF> Bioinformatics for Genomics - 9-13 September 2019 <https://genomics.ed.ac.uk/services/bioinformatics-genomics> <https://genomics.ed.ac.uk/services/introduction-python-biologists-0><https://genomics.ed.ac.uk/services/introduction-python-biologists-0> This is a week-long workshop that combines our popular ‘Linux for Genomics’, ‘R for Genomics’, and ‘Introduction to RNA-seq Data Analysis’, taught by Edinburgh Genomics’ Bioinformaticians. By the end of the five days, you will be: comfortable on the Linux command line; able to view, filter and manipulate large text files; able to write pipelines to perform certain bioinformatics tasks; familiar with and able to use the basics of R; confident using several data QC and processing tools; able to generate gene counts and differential expression statistics; and prepared to put it all together with visualization, interpretation, and gene set analysis. Tutors: Urmi Trivedi, Bioinformatician, Edinburgh Genomics; Frances Turner, Bioinformatician, Edinburgh Genomics; Tim Booth, Analyst - Developer, Edinburgh Genomics; Nathan Medd, Training and Outreach Manager, Edinburgh Genomics Registration fee: £750 (including lunches and refreshments) Where: Peter Wilson Building, The Kings Buildings, Edinburgh. Register here<https://www.surveymonkey.co.uk/r/8P6NW8H> For more courses coming soon please check out our training web-page: https://genomics.ed.ac.uk/services/training Can't see the course you need to progress your skills? Tell us what your training needs are by completing this short survey<https://www.surveymonkey.co.uk/r/7M6QB2D>. Kind Regards Nathan Medd Training and Outreach Manager - Edinburgh Genomics ======================================================== Edinburgh Genomics' Privacy Notice can be viewed at: http://genomics.ed.ac.uk/about-us/privacy-notice This email and any attachments are confidential and intended solely for the use of the recipient(s) to whom they are addressed. If you have received it in error, please destroy all copies and inform the sender. ======================================================== The University of Edinburgh is a charitable body, registered in Scotland, with registration number SC005336.
Want to improve your bioinformatics skills before the start of the next term? Check out some of our great new courses running here in Edinburgh. Remember if you are a member of the Genetics Society you may be eligible for a training grant to cover the course fees. See http://www.genetics.org.uk/grants/training-grant/ for details. ... Introduction to RNA-seq Data Analysis 5-7 August 2019 <https://genomics.ed.ac.uk/services/introduction-rna-seq-data-analysis> *NEW THREE-DAY FORMAT*<https://genomics.ed.ac.uk/services/introduction-rna-seq-data-analysis> <https://genomics.ed.ac.uk/services/introduction-python-biologists-0> RNA sequencing (RNA-seq) is the method of choice for transcriptome profiling. Nevertheless, it is a non-trivial task to transform the vast amount of data obtained with high-throughput sequencers into useful information. Thus, RNA-seq data analysis is still a major bottleneck for most researchers in this field. The ability of correctly interpreting RNA-seq results, as well as knowledge on the intrinsic properties of these data, are essential to avoid incorrect experimental designs and the application of inappropriate analysis methodologies. The aim of this workshop is to familiarise researchers with RNA-seq data and to initiate them in the analysis by providing lectures and practicals on analysis methodologies. In the practicals Illumina-generated sequencing data and various widely used software programs will be used. Tutors: Urmi Trivedi, Bioinformatician, Edinburgh Genomics; Frances Turner, Bioinformatician, Edinburgh Genomics; Nathan Medd, Training and Outreach Manager, Edinburgh Genomics (demonstrator) Registration fee: £500 (including lunches and refreshments) Register here<https://www.surveymonkey.co.uk/r/YDPZPSB> Metagenomics and Metabarcoding - 28-30 August 2019<https://genomics.ed.ac.uk/services/metagenomics-metabarcoding> *BRAND NEW* <https://genomics.ed.ac.uk/services/introduction-python-biologists-0> This course focuses on the computational methods used to analyse the wealth of data produced by shotgun metagenomics and metabarcoding (Amplicon targeted metagenomics) studies. This course will provide you insights in to DNA metabarcoding analyses, from preprocessing and quality control of the raw data to the construction of OTU/ASV tables, taxon assignment, diversity analysis and differential abundance analysis using QIIME2. Further, you will also learn about methods to generate the reference-based profile to generate microbial community features like taxonomic abundances or functional profile and how to identify the ones characterizing differences between two biological conditions. You will then be introduced to methods used for assembly from metagenomics samples. Attendees will use tools to assemble metagenome assembled genomes (MAGs) from short read and long read data. We will discuss the different approaches and tools available for these assemblies and the benefits and limitations of each options. Tutors: Urmi Trivedi, Bioinformatician, Edinburgh Genomics; Amanda Warr, Research Geneticist, Roslin Institute; Rob Stewart, Bioinformatician, Roslin Institute; Albert Phillimore, Institute of Evolutionary Biology, University of Edinburgh (guest lecturer); Nathan Medd, Training and Outreach Manager, Edinburgh Genomics (demonstrator) Registration fee: £500 (including lunches and refreshments) Where: Peter Wilson Building, The Kings Buildings, Edinburgh Register here<https://www.surveymonkey.co.uk/r/8MKKK96> Network Analysis of High Dimensional Biological Data - 6th September 2019 <https://genomics.ed.ac.uk/services/network-analysis-high-dimensional-biological-data-15th-july-2019> *Following the Edinburgh Genome Science Conference (http://genomescience.co.uk/)* <https://genomics.ed.ac.uk/services/introduction-python-biologists-0><https://genomics.ed.ac.uk/services/introduction-python-biologists-0> This one day practical course is designed to introduce participants to the joys of networks, focusing on their application to biological research and in particular, their use in the analysis of complex data. The course will start by introducing the principles of networks and their use as a generic medium to understand the relationships between entities. It will then introduce participants to a new analysis platform, Graphia, going through the basics of its functionality for network visualisation and navigation, and demonstrating the tool‘s use in the exploration of large networks of protein interaction data and phylogenetic trees. Tutor: Prof Tom Freeman, Roslin Institute & Kajeka Registration fee: £45 (including lunch and refreshments) Where: James Clerk Maxwell Building, The Kings Buildings, Edinburgh. Register here<https://www.surveymonkey.co.uk/r/H7PNDYF> Bioinformatics for Genomics - 9-13 September 2019 <https://genomics.ed.ac.uk/services/bioinformatics-genomics> <https://genomics.ed.ac.uk/services/introduction-python-biologists-0><https://genomics.ed.ac.uk/services/introduction-python-biologists-0> This is a week-long workshop that combines our popular ‘Linux for Genomics’, ‘R for Genomics’, and ‘Introduction to RNA-seq Data Analysis’, taught by Edinburgh Genomics’ Bioinformaticians. By the end of the five days, you will be: comfortable on the Linux command line; able to view, filter and manipulate large text files; able to write pipelines to perform certain bioinformatics tasks; familiar with and able to use the basics of R; confident using several data QC and processing tools; able to generate gene counts and differential expression statistics; and prepared to put it all together with visualization, interpretation, and gene set analysis. Tutors: Urmi Trivedi, Bioinformatician, Edinburgh Genomics; Frances Turner, Bioinformatician, Edinburgh Genomics; Tim Booth, Analyst - Developer, Edinburgh Genomics; Nathan Medd, Training and Outreach Manager, Edinburgh Genomics Registration fee: £750 (including lunches and refreshments) Where: Peter Wilson Building, The Kings Buildings, Edinburgh. Register here<https://www.surveymonkey.co.uk/r/8P6NW8H> <http://genomics.ed.ac.uk/services/bioinformatics-workflows-snakemake> Bioinformatics Workflows with Snakemake - 30 September - 01 October 2019 *NEW*<http://genomics.ed.ac.uk/services/bioinformatics-workflows-snakemake> Are you running data analysis workflows? Want to step up to the next level of organisation and efficiency? Save yourself time, increase replicability, and master your analysis with Snakemake. The Snakemake workflow system provides effective solutions to organise your tasks, document and share your methods, make effective use of compute resources, and handle unexpected errors in processing. Edinburgh Genomics are offering a two-day course that will have you confident in using Snakemake to tackle complex workflow problems and in your day-to-day research. Tutors: Tim Booth, Analyst - Developer, Edinburgh Genomics; Hywel Dunn-Davis, Analyst - Developer, Edinburgh Genomics Registration fee: £400 (including lunches and refreshments) Where: Ashworth Building, The Kings Buildings, Edinburgh. Register here <https://www.surveymonkey.co.uk/r/X8GFP99> For more courses coming soon please check out our training web-page: https://genomics.ed.ac.uk/services/training Can't see the course you need to progress your skills? Tell us what your training needs are by completing this short survey<https://www.surveymonkey.co.uk/r/7M6QB2D>. Kind Regards Nathan Medd Training and Outreach Manager - Edinburgh Genomics -- ======================================================== Edinburgh Genomics' Privacy Notice can be viewed at: http://genomics.ed.ac.uk/about-us/privacy-notice This email and any attachments are confidential and intended solely for the use of the recipient(s) to whom they are addressed. If you have received it in error, please destroy all copies and inform the sender. ======================================================== The University of Edinburgh is a charitable body, registered in Scotland, with registration number SC005336.
New courses this autumn are open for booking at Edinburgh Genomics. We are expanding to run more courses across the different University campuses. So if you are in Little France, Kings Buildings, or Roslin, watch out for a course near you soon! ... Metagenomics and Metabarcoding - 28-30 August 2019<https://genomics.ed.ac.uk/services/metagenomics-metabarcoding> *Spaces Remaining* <https://genomics.ed.ac.uk/services/introduction-python-biologists-0> This course focuses on the computational methods used to analyse the wealth of data produced by shotgun metagenomics and metabarcoding (Amplicon targeted metagenomics) studies. This course will provide you insights in to DNA metabarcoding analyses, from preprocessing and quality control of the raw data to the construction of OTU/ASV tables, taxon assignment, diversity analysis and differential abundance analysis using QIIME2. Further, you will also learn about methods to generate the reference-based profile to generate microbial community features like taxonomic abundances or functional profile and how to identify the ones characterizing differences between two biological conditions. You will then be introduced to methods used for assembly from metagenomics samples. Attendees will use tools to assemble metagenome assembled genomes (MAGs) from short read and long read data. We will discuss the different approaches and tools available for these assemblies and the benefits and limitations of each options. Tutors: Urmi Trivedi, Bioinformatician, Edinburgh Genomics; Amanda Warr, Research Geneticist, Roslin Institute; Rob Stewart, Bioinformatician, Roslin Institute; Albert Phillimore, Institute of Evolutionary Biology, University of Edinburgh (guest lecturer); Nathan Medd, Training and Outreach Manager, Edinburgh Genomics (demonstrator) Registration fee: £500 (including lunches and refreshments) Where: Peter Wilson Building, The Kings Buildings, Edinburgh Register here<https://www.surveymonkey.co.uk/r/8MKKK96> Network Analysis of High Dimensional Biological Data - 6th September 2019 <https://genomics.ed.ac.uk/services/network-analysis-high-dimensional-biological-data-15th-july-2019> *Following the Edinburgh Genome Science Conference (http://genomescience.co.uk/)* <https://genomics.ed.ac.uk/services/introduction-python-biologists-0><https://genomics.ed.ac.uk/services/introduction-python-biologists-0> This one day practical course is designed to introduce participants to the joys of networks, focusing on their application to biological research and in particular, their use in the analysis of complex data. The course will start by introducing the principles of networks and their use as a generic medium to understand the relationships between entities. It will then introduce participants to a new analysis platform, Graphia, going through the basics of its functionality for network visualisation and navigation, and demonstrating the tool‘s use in the exploration of large networks of protein interaction data and phylogenetic trees. Tutor: Prof Tom Freeman, Roslin Institute & Kajeka Registration fee: £45 (including lunch and refreshments) Where: James Clerk Maxwell Building, The Kings Buildings, Edinburgh. Register here<https://www.surveymonkey.co.uk/r/H7PNDYF> Bioinformatics for Genomics - 9-13 September 2019 <https://genomics.ed.ac.uk/services/bioinformatics-genomics> <https://genomics.ed.ac.uk/services/introduction-python-biologists-0><https://genomics.ed.ac.uk/services/introduction-python-biologists-0> This is a week-long workshop that combines our popular ‘Linux for Genomics’, ‘R for Genomics’, and ‘Introduction to RNA-seq Data Analysis’, taught by Edinburgh Genomics’ Bioinformaticians. By the end of the five days, you will be: comfortable on the Linux command line; able to view, filter and manipulate large text files; able to write pipelines to perform certain bioinformatics tasks; familiar with and able to use the basics of R; confident using several data QC and processing tools; able to generate gene counts and differential expression statistics; and prepared to put it all together with visualization, interpretation, and gene set analysis. Tutors: Urmi Trivedi, Bioinformatician, Edinburgh Genomics; Frances Turner, Bioinformatician, Edinburgh Genomics; Tim Booth, Analyst - Developer, Edinburgh Genomics; Nathan Medd, Training and Outreach Manager, Edinburgh Genomics Registration fee: £750 (including lunches and refreshments) Where: Peter Wilson Building, The Kings Buildings, Edinburgh. Register here<https://www.surveymonkey.co.uk/r/8P6NW8H> <http://genomics.ed.ac.uk/services/bioinformatics-workflows-snakemake> Bioinformatics Workflows with Snakemake - 30 September - 01 October 2019 *NEW*<http://genomics.ed.ac.uk/services/bioinformatics-workflows-snakemake> Are you running data analysis workflows? Want to step up to the next level of organisation and efficiency? Save yourself time, increase replicability, and master your analysis with Snakemake. The Snakemake workflow system provides effective solutions to organise your tasks, document and share your methods, make effective use of compute resources, and handle unexpected errors in processing. Edinburgh Genomics are offering a two-day course that will have you confident in using Snakemake to tackle complex workflow problems and in your day-to-day research. Tutors: Tim Booth, Analyst - Developer, Edinburgh Genomics; Hywel Dunn-Davis, Analyst - Developer, Edinburgh Genomics Registration fee: £400 (including lunches and refreshments) Where: Ashworth Building, The Kings Buildings, Edinburgh. Register here <https://www.surveymonkey.co.uk/r/X8GFP99> Bioinformatics for Genomics - 28 October - 01 November 2019 <https://genomics.ed.ac.uk/services/bioinformatics-genomics-0> <https://genomics.ed.ac.uk/services/bioinformatics-genomics-0> *Little France Campus* <https://genomics.ed.ac.uk/services/introduction-python-biologists-0><https://genomics.ed.ac.uk/services/introduction-python-biologists-0> This is a week-long workshop that combines our popular ‘Linux for Genomics’, ‘R for Genomics’, and ‘Introduction to RNA-seq Data Analysis’, taught by Edinburgh Genomics’ Bioinformaticians. By the end of the five days, you will be: comfortable on the Linux command line; able to view, filter and manipulate large text files; able to write pipelines to perform certain bioinformatics tasks; familiar with and able to use the basics of R; confident using several data QC and processing tools; able to generate gene counts and differential expression statistics; and prepared to put it all together with visualization, interpretation, and gene set analysis. Tutors: Urmi Trivedi, Bioinformatician, Edinburgh Genomics; Frances Turner, Bioinformatician, Edinburgh Genomics; Tim Booth, Analyst - Developer, Edinburgh Genomics; Nathan Medd, Training and Outreach Manager, Edinburgh Genomics Registration fee: £750 (including lunches and refreshments) Where: Chancellors Building, The little France (BioQuarter) Campus, Edinburgh. Register here<https://www.surveymonkey.co.uk/r/PRXMJL2> <http://genomics.ed.ac.uk/services/bioinformatics-workflows-snakemake> Introduction to Linux and Workflows for Biologists, 04 - 08 November 2019 <https://genomics.ed.ac.uk/services/introduction-linux-and-workflows-biologists> This week-long course will introduce the Linux command line environment from scratch and teach students how to make the most of its tools to achieve a high level of productivity when working with biological data. Tutor: Martin Jones (Founder of Python for Biologists) Registration fee: £550 (includes coffee/tea, but no lunch) Where: Ashworth Building, Kings Buildings, University of Edinburgh, Edinburgh, EH9 3FL Register here <https://www.surveymonkey.co.uk/r/VZQY9HZ> For more courses coming soon please check out our training web-page: https://genomics.ed.ac.uk/services/training Can't see the course you need to progress your skills? Tell us what your training needs are by completing this short survey<https://www.surveymonkey.co.uk/r/7M6QB2D>. Kind Regards Nathan Medd Training and Outreach Manager - Edinburgh Genomics -- ======================================================== Edinburgh Genomics' Privacy Notice can be viewed at: http://genomics.ed.ac.uk/about-us/privacy-notice This email and any attachments are confidential and intended solely for the use of the recipient(s) to whom they are addressed. If you have received it in error, please destroy all copies and inform the sender. ======================================================== The University of Edinburgh is a charitable body, registered in Scotland, with registration number SC005336.
Dear All We have another new course to add to the list of great bioinformatics courses happening this Autumn: 'R for Genomics'. This two-day course (see below) is an introduction to the most powerful and useful data analysis environment out there. This course is a fun (yes fun) lead-in to the concepts and language of R using relevant genomics examples. We take you from the very basics through iteration, data manipulation, and genomic data structures to data visualisation using ggplot2. So, take a look at this and our other courses coming up soon below! ........ Metagenomics and Metabarcoding - 28-30 August 2019<https://genomics.ed.ac.uk/services/metagenomics-metabarcoding> *Few spaces remaining* <https://genomics.ed.ac.uk/services/introduction-python-biologists-0> This course focuses on the computational methods used to analyse the wealth of data produced by shotgun metagenomics and metabarcoding (Amplicon targeted metagenomics) studies. This course will provide you insights in to DNA metabarcoding analyses, from preprocessing and quality control of the raw data to the construction of OTU/ASV tables, taxon assignment, diversity analysis and differential abundance analysis using QIIME2. Further, you will also learn about methods to generate the reference-based profile to generate microbial community features like taxonomic abundances or functional profile and how to identify the ones characterizing differences between two biological conditions. You will then be introduced to methods used for assembly from metagenomics samples. Attendees will use tools to assemble metagenome assembled genomes (MAGs) from short read and long read data. We will discuss the different approaches and tools available for these assemblies and the benefits and limitations of each options. Tutors: Urmi Trivedi, Bioinformatician, Edinburgh Genomics; Amanda Warr, Research Geneticist, Roslin Institute; Rob Stewart, Bioinformatician, Roslin Institute; Albert Phillimore, Institute of Evolutionary Biology, University of Edinburgh (guest lecturer); Nathan Medd, Training and Outreach Manager, Edinburgh Genomics (demonstrator) Registration fee: £500 (including lunches and refreshments) Where: Peter Wilson Building, The Kings Buildings, Edinburgh Register here<https://www.surveymonkey.co.uk/r/8MKKK96> Network Analysis of High Dimensional Biological Data - 6th September 2019 <https://genomics.ed.ac.uk/services/network-analysis-high-dimensional-biological-data-15th-july-2019> *Following the Edinburgh Genome Science Conference (http://genomescience.co.uk/)* <https://genomics.ed.ac.uk/services/introduction-python-biologists-0><https://genomics.ed.ac.uk/services/introduction-python-biologists-0> This one day practical course is designed to introduce participants to the joys of networks, focusing on their application to biological research and in particular, their use in the analysis of complex data. The course will start by introducing the principles of networks and their use as a generic medium to understand the relationships between entities. It will then introduce participants to a new analysis platform, Graphia, going through the basics of its functionality for network visualisation and navigation, and demonstrating the tool‘s use in the exploration of large networks of protein interaction data and phylogenetic trees. Tutor: Prof Tom Freeman, Roslin Institute & Kajeka Registration fee: £45 (including lunch and refreshments) Where: James Clerk Maxwell Building, The Kings Buildings, Edinburgh. Register here<https://www.surveymonkey.co.uk/r/H7PNDYF> Bioinformatics for Genomics - 9-13 September 2019 <https://genomics.ed.ac.uk/services/bioinformatics-genomics> <https://genomics.ed.ac.uk/services/introduction-python-biologists-0><https://genomics.ed.ac.uk/services/introduction-python-biologists-0> This is a week-long workshop that combines our popular ‘Linux for Genomics’, ‘R for Genomics’, and ‘Introduction to RNA-seq Data Analysis’, taught by Edinburgh Genomics’ Bioinformaticians. By the end of the five days, you will be: comfortable on the Linux command line; able to view, filter and manipulate large text files; able to write pipelines to perform certain bioinformatics tasks; familiar with and able to use the basics of R; confident using several data QC and processing tools; able to generate gene counts and differential expression statistics; and prepared to put it all together with visualization, interpretation, and gene set analysis. Tutors: Urmi Trivedi, Bioinformatician, Edinburgh Genomics; Frances Turner, Bioinformatician, Edinburgh Genomics; Tim Booth, Analyst - Developer, Edinburgh Genomics; Nathan Medd, Training and Outreach Manager, Edinburgh Genomics Registration fee: £750 (including lunches and refreshments) Where: Peter Wilson Building, The Kings Buildings, Edinburgh. Register here<https://www.surveymonkey.co.uk/r/8P6NW8H> <http://genomics.ed.ac.uk/services/bioinformatics-workflows-snakemake> Bioinformatics Workflows with Snakemake - 30 September - 01 October 2019 *NEW*<http://genomics.ed.ac.uk/services/bioinformatics-workflows-snakemake> Are you running data analysis workflows? Want to step up to the next level of organisation and efficiency? Save yourself time, increase replicability, and master your analysis with Snakemake. The Snakemake workflow system provides effective solutions to organise your tasks, document and share your methods, make effective use of compute resources, and handle unexpected errors in processing. Edinburgh Genomics are offering a two-day course that will have you confident in using Snakemake to tackle complex workflow problems and in your day-to-day research. Tutors: Tim Booth, Analyst - Developer, Edinburgh Genomics; Hywel Dunn-Davis, Analyst - Developer, Edinburgh Genomics Registration fee: £400 (including lunches and refreshments) Where: Ashworth Building, The Kings Buildings, Edinburgh. Register here <https://www.surveymonkey.co.uk/r/X8GFP99> Bioinformatics for Genomics - 28 October - 01 November 2019 <https://genomics.ed.ac.uk/services/bioinformatics-genomics-0> <https://genomics.ed.ac.uk/services/bioinformatics-genomics-0> *Little France Campus* <https://genomics.ed.ac.uk/services/introduction-python-biologists-0><https://genomics.ed.ac.uk/services/introduction-python-biologists-0> This is a week-long workshop that combines our popular ‘Linux for Genomics’, ‘R for Genomics’, and ‘Introduction to RNA-seq Data Analysis’, taught by Edinburgh Genomics’ Bioinformaticians. By the end of the five days, you will be: comfortable on the Linux command line; able to view, filter and manipulate large text files; able to write pipelines to perform certain bioinformatics tasks; familiar with and able to use the basics of R; confident using several data QC and processing tools; able to generate gene counts and differential expression statistics; and prepared to put it all together with visualization, interpretation, and gene set analysis. Tutors: Urmi Trivedi, Bioinformatician, Edinburgh Genomics; Frances Turner, Bioinformatician, Edinburgh Genomics; Tim Booth, Analyst - Developer, Edinburgh Genomics; Nathan Medd, Training and Outreach Manager, Edinburgh Genomics Registration fee: £750 (including lunches and refreshments) Where: Chancellors Building, The little France (BioQuarter) Campus, Edinburgh. Register here<https://www.surveymonkey.co.uk/r/PRXMJL2> <http://genomics.ed.ac.uk/services/bioinformatics-workflows-snakemake> Introduction to Linux and Workflows for Biologists, 04 - 08 November 2019 <https://genomics.ed.ac.uk/services/introduction-linux-and-workflows-biologists> This week-long course will introduce the Linux command line environment from scratch and teach students how to make the most of its tools to achieve a high level of productivity when working with biological data. Tutor: Martin Jones (Founder of Python for Biologists) Registration fee: £550 (includes coffee/tea, but no lunch) Where: Ashworth Building, Kings Buildings, University of Edinburgh, Edinburgh, EH9 3FL Register here <https://www.surveymonkey.co.uk/r/VZQY9HZ> Introduction to R for Genomics, 14 - 15 November 2019 <https://genomics.ed.ac.uk/services/r-genomics> The aim of this course is to introduce participants to the statistical computing language 'R' using examples and skills relevant to genomic data science. This two day workshop is taught by experienced Edinburgh Genomics’ bioinformaticians and trainers. By the end of the workshop, you will be comfortable with the basics of the R and R studio environments, learning about the rules of the language and how R works with different data types. We then move on to using functions, including those specific to genomic science. We look at how to handle various genomic data files and where to find relevant tools via online resources. Finally we use mock RNA-seq data to learn how to visualize your data to generate publication ready plots using the package ggplot2. Tutors: Nathan Medd, Training and Outreach Manager, Edinburgh Genomics; Hywel Dunn-Davis, Analyst - Developer, Edinburgh Genomics Registration fee: £400 (includes coffee/tea, but no lunch) Where: Microlabs, The Chancellors Buildings, Little France Campus (BioQuarter), Edinburgh. Register here <https://www.surveymonkey.co.uk/r/83FGGXV> For more courses coming soon please check out our training web-page: https://genomics.ed.ac.uk/services/training Can't see the course you need to progress your skills? Tell us what your training needs are by completing this short survey<https://www.surveymonkey.co.uk/r/7M6QB2D>. Kind Regards Nathan Medd Training and Outreach Manager - Edinburgh Genomics -- ======================================================== Edinburgh Genomics' Privacy Notice can be viewed at: http://genomics.ed.ac.uk/about-us/privacy-notice This email and any attachments are confidential and intended solely for the use of the recipient(s) to whom they are addressed. If you have received it in error, please destroy all copies and inform the sender. ======================================================== The University of Edinburgh is a charitable body, registered in Scotland, with registration number SC005336.
Dear All Check out our new bioinformatics courses happening this autumn. We've just advertised another 'Introduction to RNA-seq data analysis' workshop which will be running again this November in the Chancellors Building, Little France (BioQuarter). There are also some last minute spaces available on this weeks Metagenomics and Metabarcoding course, but you'll have to be quick! ........ Metagenomics and Metabarcoding - 28-30 August 2019<https://genomics.ed.ac.uk/services/metagenomics-metabarcoding> *Last Minute Sign-ups Welcome* <https://genomics.ed.ac.uk/services/introduction-python-biologists-0> This course focuses on the computational methods used to analyse the wealth of data produced by shotgun metagenomics and metabarcoding (Amplicon targeted metagenomics) studies. This course will provide you insights in to DNA metabarcoding analyses, from preprocessing and quality control of the raw data to the construction of OTU/ASV tables, taxon assignment, diversity analysis and differential abundance analysis using QIIME2. Further, you will also learn about methods to generate the reference-based profile to generate microbial community features like taxonomic abundances or functional profile and how to identify the ones characterizing differences between two biological conditions. You will then be introduced to methods used for assembly from metagenomics samples. Attendees will use tools to assemble metagenome assembled genomes (MAGs) from short read and long read data. We will discuss the different approaches and tools available for these assemblies and the benefits and limitations of each options. Tutors: Urmi Trivedi, Bioinformatician, Edinburgh Genomics; Amanda Warr, Research Geneticist, Roslin Institute; Rob Stewart, Bioinformatician, Roslin Institute; Albert Phillimore, Institute of Evolutionary Biology, University of Edinburgh (guest lecturer); Nathan Medd, Training and Outreach Manager, Edinburgh Genomics (demonstrator) Registration fee: £500 (including lunches and refreshments) Where: Peter Wilson Building, The Kings Buildings, Edinburgh Register here<https://www.surveymonkey.co.uk/r/8MKKK96> Network Analysis of High Dimensional Biological Data - 6th September 2019 <https://genomics.ed.ac.uk/services/network-analysis-high-dimensional-biological-data-15th-july-2019> *Following the Edinburgh Genome Science Conference (http://genomescience.co.uk/)* <https://genomics.ed.ac.uk/services/introduction-python-biologists-0><https://genomics.ed.ac.uk/services/introduction-python-biologists-0> This one day practical course is designed to introduce participants to the joys of networks, focusing on their application to biological research and in particular, their use in the analysis of complex data. The course will start by introducing the principles of networks and their use as a generic medium to understand the relationships between entities. It will then introduce participants to a new analysis platform, Graphia, going through the basics of its functionality for network visualisation and navigation, and demonstrating the tool‘s use in the exploration of large networks of protein interaction data and phylogenetic trees. Tutor: Prof Tom Freeman, Roslin Institute & Kajeka Registration fee: £45 (including lunch and refreshments) Where: James Clerk Maxwell Building, The Kings Buildings, Edinburgh. Register here<https://www.surveymonkey.co.uk/r/H7PNDYF> Bioinformatics for Genomics - 9-13 September 2019 <https://genomics.ed.ac.uk/services/bioinformatics-genomics> <https://genomics.ed.ac.uk/services/introduction-python-biologists-0><https://genomics.ed.ac.uk/services/introduction-python-biologists-0> This is a week-long workshop that combines our popular ‘Linux for Genomics’, ‘R for Genomics’, and ‘Introduction to RNA-seq Data Analysis’, taught by Edinburgh Genomics’ Bioinformaticians. By the end of the five days, you will be: comfortable on the Linux command line; able to view, filter and manipulate large text files; able to write pipelines to perform certain bioinformatics tasks; familiar with and able to use the basics of R; confident using several data QC and processing tools; able to generate gene counts and differential expression statistics; and prepared to put it all together with visualization, interpretation, and gene set analysis. Tutors: Urmi Trivedi, Bioinformatician, Edinburgh Genomics; Frances Turner, Bioinformatician, Edinburgh Genomics; Tim Booth, Analyst - Developer, Edinburgh Genomics; Nathan Medd, Training and Outreach Manager, Edinburgh Genomics Registration fee: £750 (including lunches and refreshments) Where: Peter Wilson Building, The Kings Buildings, Edinburgh. Register here<https://www.surveymonkey.co.uk/r/8P6NW8H> <http://genomics.ed.ac.uk/services/bioinformatics-workflows-snakemake> Bioinformatics Workflows with Snakemake - 30 September - 01 October 2019 *NEW*<http://genomics.ed.ac.uk/services/bioinformatics-workflows-snakemake> Are you running data analysis workflows? Want to step up to the next level of organisation and efficiency? Save yourself time, increase replicability, and master your analysis with Snakemake. The Snakemake workflow system provides effective solutions to organise your tasks, document and share your methods, make effective use of compute resources, and handle unexpected errors in processing. Edinburgh Genomics are offering a two-day course that will have you confident in using Snakemake to tackle complex workflow problems and in your day-to-day research. Tutors: Tim Booth, Analyst - Developer, Edinburgh Genomics; Hywel Dunn-Davis, Analyst - Developer, Edinburgh Genomics Registration fee: £400 (including lunches and refreshments) Where: Ashworth Building, The Kings Buildings, Edinburgh. Register here <https://www.surveymonkey.co.uk/r/X8GFP99> Bioinformatics for Genomics - 28 October - 01 November 2019 <https://genomics.ed.ac.uk/services/bioinformatics-genomics-0> <https://genomics.ed.ac.uk/services/bioinformatics-genomics-0> *Little France Campus* <https://genomics.ed.ac.uk/services/introduction-python-biologists-0><https://genomics.ed.ac.uk/services/introduction-python-biologists-0> This is a week-long workshop that combines our popular ‘Linux for Genomics’, ‘R for Genomics’, and ‘Introduction to RNA-seq Data Analysis’, taught by Edinburgh Genomics’ Bioinformaticians. By the end of the five days, you will be: comfortable on the Linux command line; able to view, filter and manipulate large text files; able to write pipelines to perform certain bioinformatics tasks; familiar with and able to use the basics of R; confident using several data QC and processing tools; able to generate gene counts and differential expression statistics; and prepared to put it all together with visualization, interpretation, and gene set analysis. Tutors: Urmi Trivedi, Bioinformatician, Edinburgh Genomics; Frances Turner, Bioinformatician, Edinburgh Genomics; Tim Booth, Analyst - Developer, Edinburgh Genomics; Nathan Medd, Training and Outreach Manager, Edinburgh Genomics Registration fee: £750 (including lunches and refreshments) Where: Chancellors Building, The little France (BioQuarter) Campus, Edinburgh. Register here<https://www.surveymonkey.co.uk/r/PRXMJL2> <http://genomics.ed.ac.uk/services/bioinformatics-workflows-snakemake> Introduction to Linux and Workflows for Biologists, 04 - 08 November 2019 <https://genomics.ed.ac.uk/services/introduction-linux-and-workflows-biologists> This week-long course will introduce the Linux command line environment from scratch and teach students how to make the most of its tools to achieve a high level of productivity when working with biological data. Tutor: Martin Jones (Founder of Python for Biologists) Registration fee: £550 (includes coffee/tea, but no lunch) Where: Ashworth Building, Kings Buildings, University of Edinburgh, Edinburgh, EH9 3FL Register here <https://www.surveymonkey.co.uk/r/VZQY9HZ> Introduction to R for Genomics, 14 - 15 November 2019 <https://genomics.ed.ac.uk/services/r-genomics> The aim of this course is to introduce participants to the statistical computing language 'R' using examples and skills relevant to genomic data science. This two day workshop is taught by experienced Edinburgh Genomics’ bioinformaticians and trainers. By the end of the workshop, you will be comfortable with the basics of the R and R studio environments, learning about the rules of the language and how R works with different data types. We then move on to using functions, including those specific to genomic science. We look at how to handle various genomic data files and where to find relevant tools via online resources. Finally we use mock RNA-seq data to learn how to visualize your data to generate publication ready plots using the package ggplot2. Tutors: Nathan Medd, Training and Outreach Manager, Edinburgh Genomics; Hywel Dunn-Davis, Analyst - Developer, Edinburgh Genomics Registration fee: £400 (includes coffee/tea, but no lunch) Where: Microlabs, The Chancellors Buildings, Little France Campus (BioQuarter), Edinburgh. Register here <https://www.surveymonkey.co.uk/r/83FGGXV> Introduction to RNA-seq Data Analysis 18-20 November 2019 <https://genomics.ed.ac.uk/services/introduction-rna-seq-data-analysis> *NEW THREE-DAY FORMAT*<https://genomics.ed.ac.uk/services/introduction-rna-seq-data-analysis> <https://genomics.ed.ac.uk/services/introduction-python-biologists-0> RNA sequencing (RNA-seq) is the method of choice for transcriptome profiling. Nevertheless, it is a non-trivial task to transform the vast amount of data obtained with high-throughput sequencers into useful information. Thus, RNA-seq data analysis is still a major bottleneck for most researchers in this field. The ability of correctly interpreting RNA-seq results, as well as knowledge on the intrinsic properties of these data, are essential to avoid incorrect experimental designs and the application of inappropriate analysis methodologies. The aim of this workshop is to familiarise researchers with RNA-seq data and to initiate them in the analysis by providing lectures and practicals on analysis methodologies. In the practicals Illumina-generated sequencing data and various widely used software programs will be used. Tutors: Urmi Trivedi, Bioinformatician, Edinburgh Genomics; Frances Turner, Bioinformatician, Edinburgh Genomics; Nathan Medd, Training and Outreach Manager, Edinburgh Genomics (demonstrator) Registration fee: £500 (including lunches and refreshments) Register here<https://www.surveymonkey.co.uk/r/9PGK7KX> For more courses coming soon please check out our training web-page: https://genomics.ed.ac.uk/services/training Can't see the course you need to progress your skills? Tell us what your training needs are by completing this short survey<https://www.surveymonkey.co.uk/r/7M6QB2D>. Kind Regards Nathan Medd Training and Outreach Manager - Edinburgh Genomics -- ======================================================== Edinburgh Genomics' Privacy Notice can be viewed at: http://genomics.ed.ac.uk/about-us/privacy-notice This email and any attachments are confidential and intended solely for the use of the recipient(s) to whom they are addressed. If you have received it in error, please destroy all copies and inform the sender. ======================================================== The University of Edinburgh is a charitable body, registered in Scotland, with registration number SC005336.
Dear All Start your new term with a boost to your bioinformatics skills! Here at Edinburgh Genomics we have a range of new courses running this autumn, from introductory to advanced level at a range of locations. Check them out below or visit our website (https://genomics.ed.ac.uk/services/training) for more information. ----------------------------- Bioinformatics Workflows with Snakemake - 30 September - 01 October 2019 *NEW*<http://genomics.ed.ac.uk/services/bioinformatics-workflows-snakemake> Are you running data analysis workflows? Want to step up to the next level of organisation and efficiency? Save yourself time, increase replicability, and master your analysis with Snakemake. The Snakemake workflow system provides effective solutions to organise your tasks, document and share your methods, make effective use of compute resources, and handle unexpected errors in processing. Edinburgh Genomics are offering a two-day course that will have you confident in using Snakemake to tackle complex workflow problems and in your day-to-day research. Tutors: Tim Booth, Analyst - Developer, Edinburgh Genomics; Hywel Dunn-Davis, Analyst - Developer, Edinburgh Genomics Registration fee: £400 (including lunches and refreshments) Where: Ashworth Building, The Kings Buildings, Edinburgh. Register here <https://www.surveymonkey.co.uk/r/X8GFP99> Bioinformatics for Genomics - 28 October - 01 November 2019 <https://genomics.ed.ac.uk/services/bioinformatics-genomics-0> <https://genomics.ed.ac.uk/services/bioinformatics-genomics-0> *Little France Campus* <https://genomics.ed.ac.uk/services/introduction-python-biologists-0><https://genomics.ed.ac.uk/services/introduction-python-biologists-0> This is a week-long workshop that combines our popular ‘Linux for Genomics’, ‘R for Genomics’, and ‘Introduction to RNA-seq Data Analysis’, taught by Edinburgh Genomics’ Bioinformaticians. By the end of the five days, you will be: comfortable on the Linux command line; able to view, filter and manipulate large text files; able to write pipelines to perform certain bioinformatics tasks; familiar with and able to use the basics of R; confident using several data QC and processing tools; able to generate gene counts and differential expression statistics; and prepared to put it all together with visualization, interpretation, and gene set analysis. Tutors: Urmi Trivedi, Bioinformatician, Edinburgh Genomics; Frances Turner, Bioinformatician, Edinburgh Genomics; Tim Booth, Analyst - Developer, Edinburgh Genomics; Nathan Medd, Training and Outreach Manager, Edinburgh Genomics Registration fee: £750 (including lunches and refreshments) Where: Chancellors Building, The little France (BioQuarter) Campus, Edinburgh. Register here<https://www.surveymonkey.co.uk/r/PRXMJL2> <http://genomics.ed.ac.uk/services/bioinformatics-workflows-snakemake> Introduction to Linux and Workflows for Biologists, 04 - 08 November 2019 <https://genomics.ed.ac.uk/services/introduction-linux-and-workflows-biologists> This week-long course will introduce the Linux command line environment from scratch and teach students how to make the most of its tools to achieve a high level of productivity when working with biological data. Tutor: Martin Jones (Founder of Python for Biologists) Registration fee: £550 (includes coffee/tea, but no lunch) Where: Ashworth Building, Kings Buildings, University of Edinburgh, Edinburgh, EH9 3FL Register here <https://www.surveymonkey.co.uk/r/VZQY9HZ> Introduction to R for Genomics, 14 - 15 November 2019 <https://genomics.ed.ac.uk/services/r-genomics> The aim of this course is to introduce participants to the statistical computing language 'R' using examples and skills relevant to genomic data science. This two day workshop is taught by experienced Edinburgh Genomics’ bioinformaticians and trainers. By the end of the workshop, you will be comfortable with the basics of the R and R studio environments, learning about the rules of the language and how R works with different data types. We then move on to using functions, including those specific to genomic science. We look at how to handle various genomic data files and where to find relevant tools via online resources. Finally we use mock RNA-seq data to learn how to visualize your data to generate publication ready plots using the package ggplot2. Tutors: Nathan Medd, Training and Outreach Manager, Edinburgh Genomics; Hywel Dunn-Davis, Analyst - Developer, Edinburgh Genomics Registration fee: £400 (includes coffee/tea, but no lunch) Where: Microlabs, The Chancellors Buildings, Little France Campus (BioQuarter), Edinburgh. Register here <https://www.surveymonkey.co.uk/r/83FGGXV> Introduction to RNA-seq Data Analysis 18-20 November 2019 <https://genomics.ed.ac.uk/services/introduction-rna-seq-data-analysis> *NEW THREE-DAY FORMAT*<https://genomics.ed.ac.uk/services/introduction-rna-seq-data-analysis> <https://genomics.ed.ac.uk/services/introduction-python-biologists-0> RNA sequencing (RNA-seq) is the method of choice for transcriptome profiling. Nevertheless, it is a non-trivial task to transform the vast amount of data obtained with high-throughput sequencers into useful information. Thus, RNA-seq data analysis is still a major bottleneck for most researchers in this field. The ability of correctly interpreting RNA-seq results, as well as knowledge on the intrinsic properties of these data, are essential to avoid incorrect experimental designs and the application of inappropriate analysis methodologies. The aim of this workshop is to familiarise researchers with RNA-seq data and to initiate them in the analysis by providing lectures and practicals on analysis methodologies. In the practicals Illumina-generated sequencing data and various widely used software programs will be used. Tutors: Urmi Trivedi, Bioinformatician, Edinburgh Genomics; Frances Turner, Bioinformatician, Edinburgh Genomics; Nathan Medd, Training and Outreach Manager, Edinburgh Genomics (demonstrator) Registration fee: £500 (including lunches and refreshments) Register here<https://www.surveymonkey.co.uk/r/9PGK7KX> Introduction to Linux for Genomics<https://genomics.ed.ac.uk/services/introduction-linux-genomics> 04 December 2019 Genomic studies produce vast amounts of data, usually in the form of very large text files. Linux is particularly suited to working with such files, and is therefore arguably one of the most important tools in a bioinformatician’s toolkit. The Linux command-line enables one to view, filter and manipulate large text files that are difficult or impossible to handle with applications like Word or Excel, write pipelines to perform certain tasks, and run bioinformatics software for which no web interface is available. In this workshop we will first cover the most used Linux commands, followed by a short introduction to several popular command-line tools that were especially developed for genomics as well as file formats commonly used in genomics (BED, FASTA, FASTQ, GFF/GTF, SAM/BAM, VCF). Tutors: Tim Booth, Bioinformatician, Edinburgh Genomics; Nathan Medd, Training and Outreach Manager, Edinburgh Genomics Registration fee: £225 (including lunches and refreshments) Where: Microlab 2, The Chancellors Building, The University of Edinburgh, Little France Campus, Edinburgh, Scotland, UK Register here<https://www.surveymonkey.co.uk/r/95GCMM8> Advanced Python for Biologists <https://genomics.ed.ac.uk/services/advanced-python-biologists> 09-13 December 2019 <https://genomics.ed.ac.uk/services/introduction-python-biologists-0> Python is a dynamic, readable language that is a popular platform for all types of bioinformatics work, from simple one-off scripts to large, complex software projects. This workshop is aimed at people who already have a basic knowledge of Python and are interested in using the language to tackle larger problems. In it, we will look in detail at the parts of the language which are particularly useful in scientific programming, and at the tools Python offers for making development faster and easier. The workshop will use examples and exercises drawn from various aspects of bioinformatics work. After completing the workshop, students should be in a position to (1) take advantage of the advanced language features in their own programs and (2) use appropriate tools when developing software programs. Tutors: Martin Jones (Founder of Pythonforbiologists.com) Registration fee: £550 (including lunches and refreshments) Where: James Clerk Maxwell Building, Kings Buildings, University of Edinburgh, Edinburgh Register here<https://www.surveymonkey.co.uk/r/2DKXBWM> Can't see the course you need to progress your skills? Tell us what your training needs are by completing this short survey<https://www.surveymonkey.co.uk/r/7M6QB2D>. Kind Regards Nathan Medd Training and Outreach Manager - Edinburgh Genomics Edinburgh Genomics' Privacy Notice can be viewed at: http://genomics.ed.ac.uk/about-us/privacy-notice This email and any attachments are confidential and intended solely for the use of the recipient(s) to whom they are addressed. If you have received it in error, please destroy all copies and inform the sender. The University of Edinburgh is a charitable body, registered in Scotland, with registration number SC005336.
Dear All We have a great selection of introductory courses running this term so if you are just starting out with bioinformatics we should have a course just right for you. Check out the details below or on our webpage and kick start your journey into computational biology! -------------------------------------------------------------------------------------------------- R for Genomics 14-15th March 2019<https://genomics.ed.ac.uk/services/r-genomics> The aim of this course is to introduce participants to the statistical computing language 'R' using examples and skills relevant to genomic data science. This two day workshop is taught by experienced Edinburgh Genomics' bioinformaticians and trainers. By the end of the workshop, you will be comfortable with the basics of the R and R studio environments, learning about the rules of the language and how R works with different data types. We then move on to using functions, including those specific to genomic science. We look at how to handle various genomic data files and where to find relevant tools via online resources. Finally we use mock RNA-seq data to learn how to visualize your data to generate publication ready plots using the package ggplot2. Tutor: Dr Nathan Medd Location: Microlabs, The Chancellors Buildings, Little France Campus (BioQuarter) Cost: £400 Register here <https://www.surveymonkey.co.uk/r/83FGGXV> Introduction to RNA-seq Data Analysis 18-20 November 2019<http://genomics.ed.ac.uk/services/introduction-rna-seq-data-analysis> RNA sequencing (RNA-seq) is the method of choice for transcriptome profiling. Nevertheless, it is a non-trivial task to transform the vast amount of data obtained with high-throughput sequencers into useful information. Thus, RNA-seq data analysis is still a major bottleneck for most researchers in this field. The ability of correctly interpreting RNA-seq results, as well as knowledge on the intrinsic properties of these data, are essential to avoid incorrect experimental designs and the application of inappropriate analysis methodologies. The aim of this workshop is to familiarise researchers with RNA-seq data and to initiate them in the analysis by providing lectures and practicals on analysis methodologies. In the practicals Illumina-generated sequencing data and various widely used software programs will be used. Tutors: Dr Frances Turner, Urmi Trivedi Location: Microlabs, The Chancellors Buildings, Little France Campus (BioQuarter) Registration fee: £500 Register here<https://www.surveymonkey.co.uk/r/9PGK7KX> <http://genomics.ed.ac.uk/services/introduction-linux-genomics> Linux for Genomics - 04 December 2019<http://genomics.ed.ac.uk/services/introduction-linux-genomics> "Genomic studies produce vast amounts of data, usually in the form of very large text files. Linux is particularly suited to working with such files, and is therefore arguably one of the most important tools in a bioinformatician's toolkit. The Linux command-line enables one to view, filter and manipulate large text files that are difficult or impossible to handle with applications like Word or Excel, write pipelines to perform certain tasks, and run bioinformatics software for which no web interface is available. In this workshop we will first cover the most used Linux commands, followed by a short introduction to several popular command-line tools that were especially developed for genomics as well as file formats commonly used in genomics (BED, FASTA, FASTQ, GFF/GTF, SAM/BAM, VCF)." Training and Outreach Manager - Edinburgh Genomics Tutors: Dr Nathan Medd, Tim Booth Location: Microlab 2, The Chancellors Building, The University of Edinburgh, Little France Campus Cost: £225 Register here<https://www.surveymonkey.co.uk/r/95GCMM8> For more courses coming soon please check out our training web-page: https://genomics.ed.ac.uk/services/training Kind Regards Nathan Medd Training and Outreach Manager - Edinburgh Genomics -- ======================================================== Edinburgh Genomics' Privacy Notice can be viewed at: http://genomics.ed.ac.uk/about-us/privacy-notice This email and any attachments are confidential and intended solely for the use of the recipient(s) to whom they are addressed. If you have received it in error, please destroy all copies and inform the sender. ======================================================== The University of Edinburgh is a charitable body, registered in Scotland, with registration number SC005336.
Dear All A correction to last weeks advert for introductory courses: Please see below the correct dates and locations for 'R for genomics' (in November) and 'Introduction to RNA-seq' (at the Easter Bush Campus). ----------------------------------------- R for Genomics 14-15th November 2019<https://genomics.ed.ac.uk/services/r-genomics> The aim of this course is to introduce participants to the statistical computing language 'R' using examples and skills relevant to genomic data science. This two day workshop is taught by experienced Edinburgh Genomics' bioinformaticians and trainers. By the end of the workshop, you will be comfortable with the basics of the R and R studio environments, learning about the rules of the language and how R works with different data types. We then move on to using functions, including those specific to genomic science. We look at how to handle various genomic data files and where to find relevant tools via online resources. Finally we use mock RNA-seq data to learn how to visualize your data to generate publication ready plots using the package ggplot2. Tutor: Dr Nathan Medd Location: Microlabs, The Chancellors Buildings, Little France Campus (BioQuarter) Cost: £400 Introduction to RNA-seq Data Analysis 18-20 November 2019<http://genomics.ed.ac.uk/services/introduction-rna-seq-data-analysis> RNA sequencing (RNA-seq) is the method of choice for transcriptome profiling. Nevertheless, it is a non-trivial task to transform the vast amount of data obtained with high-throughput sequencers into useful information. Thus, RNA-seq data analysis is still a major bottleneck for most researchers in this field. The ability of correctly interpreting RNA-seq results, as well as knowledge on the intrinsic properties of these data, are essential to avoid incorrect experimental designs and the application of inappropriate analysis methodologies. The aim of this workshop is to familiarise researchers with RNA-seq data and to initiate them in the analysis by providing lectures and practicals on analysis methodologies. In the practicals Illumina-generated sequencing data and various widely used software programs will be used. Tutors: Dr Frances Turner, Urmi Trivedi Location: Alexander Robertson Building, Easter Bush Campus, Edinburgh, Scotland, UK Registration fee: £500 Register here<https://www.surveymonkey.co.uk/r/9PGK7KX> Apologies for any confusion caused! Kind Regards Nathan Medd On 16/10/2019 17:10, TRAIN edgenomics-training wrote: Dear All We have a great selection of introductory courses running this term so if you are just starting out with bioinformatics we should have a course just right for you. Check out the details below or on our webpage and kick start your journey into computational biology! -------------------------------------------------------------------------------------------------- R for Genomics 14-15th March 2019<https://genomics.ed.ac.uk/services/r-genomics> The aim of this course is to introduce participants to the statistical computing language 'R' using examples and skills relevant to genomic data science. This two day workshop is taught by experienced Edinburgh Genomics' bioinformaticians and trainers. By the end of the workshop, you will be comfortable with the basics of the R and R studio environments, learning about the rules of the language and how R works with different data types. We then move on to using functions, including those specific to genomic science. We look at how to handle various genomic data files and where to find relevant tools via online resources. Finally we use mock RNA-seq data to learn how to visualize your data to generate publication ready plots using the package ggplot2. Tutor: Dr Nathan Medd Location: Microlabs, The Chancellors Buildings, Little France Campus (BioQuarter) Cost: £400 Register here <https://www.surveymonkey.co.uk/r/83FGGXV> Introduction to RNA-seq Data Analysis 18-20 November 2019<http://genomics.ed.ac.uk/services/introduction-rna-seq-data-analysis> RNA sequencing (RNA-seq) is the method of choice for transcriptome profiling. Nevertheless, it is a non-trivial task to transform the vast amount of data obtained with high-throughput sequencers into useful information. Thus, RNA-seq data analysis is still a major bottleneck for most researchers in this field. The ability of correctly interpreting RNA-seq results, as well as knowledge on the intrinsic properties of these data, are essential to avoid incorrect experimental designs and the application of inappropriate analysis methodologies. The aim of this workshop is to familiarise researchers with RNA-seq data and to initiate them in the analysis by providing lectures and practicals on analysis methodologies. In the practicals Illumina-generated sequencing data and various widely used software programs will be used. Tutors: Dr Frances Turner, Urmi Trivedi Location: Microlabs, The Chancellors Buildings, Little France Campus (BioQuarter) Registration fee: £500 Register here<https://www.surveymonkey.co.uk/r/9PGK7KX> <http://genomics.ed.ac.uk/services/introduction-linux-genomics> Linux for Genomics - 04 December 2019<http://genomics.ed.ac.uk/services/introduction-linux-genomics> "Genomic studies produce vast amounts of data, usually in the form of very large text files. Linux is particularly suited to working with such files, and is therefore arguably one of the most important tools in a bioinformatician's toolkit. The Linux command-line enables one to view, filter and manipulate large text files that are difficult or impossible to handle with applications like Word or Excel, write pipelines to perform certain tasks, and run bioinformatics software for which no web interface is available. In this workshop we will first cover the most used Linux commands, followed by a short introduction to several popular command-line tools that were especially developed for genomics as well as file formats commonly used in genomics (BED, FASTA, FASTQ, GFF/GTF, SAM/BAM, VCF)." Training and Outreach Manager - Edinburgh Genomics Tutors: Dr Nathan Medd, Tim Booth Location: Microlab 2, The Chancellors Building, The University of Edinburgh, Little France Campus Cost: £225 Register here<https://www.surveymonkey.co.uk/r/95GCMM8> For more courses coming soon please check out our training web-page: https://genomics.ed.ac.uk/services/training Kind Regards Nathan Medd Training and Outreach Manager - Edinburgh Genomics -- ======================================================== Edinburgh Genomics' Privacy Notice can be viewed at: http://genomics.ed.ac.uk/about-us/privacy-notice This email and any attachments are confidential and intended solely for the use of the recipient(s) to whom they are addressed. If you have received it in error, please destroy all copies and inform the sender. ======================================================== -- ======================================================== Edinburgh Genomics' Privacy Notice can be viewed at: http://genomics.ed.ac.uk/about-us/privacy-notice This email and any attachments are confidential and intended solely for the use of the recipient(s) to whom they are addressed. If you have received it in error, please destroy all copies and inform the sender. ======================================================== The University of Edinburgh is a charitable body, registered in Scotland, with registration number SC005336.
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TRAIN edgenomics-training