- BBClist - maillist.psb.ugent.be

Edinburgh Genomics - MinION and Python workshops
by Bert Overduin 04 May '16

04 May '16

Dear all, We still have a few places available on our workshop "Oxford Nanopore MinION Sequencing - Data Handling, Analysis and Applications" on Monday 13 June 2016. This 1-day workshop will focus on the handling, analysis and applications of MinION sequence data. The workshop will be a combination of presentations, demos and hands-on tutorials. In the hands-on tutorials a wide range of software programs will be used, some of which were especially developed for the MinION. The workshop is aimed at anyone who is working with, or is planning to work with, Oxford Nanopore MinION sequence data. Note that we are also offering three(!) different weeklong Python courses, an introductory one, an advanced one, as well as one focused on data manipulation and visualisation. All three are taught by dr Martin Jones, founder of Python for Biologists (http://pythonforbiologists.com) and author of several books on Python ( http://pythonforbiologists.com/index.php/books/) Registration for all workshops can be done through the workshop pages indicated below, on which you can also find much more detailed information about each workshop. Please don't hesitate to contact me if you have a question with regard to any of the workshops. I hope to see you at one (or more) of our workshops! With kind regards, Bert Overduin ************************* *1-day Oxford Nanopore MinION Sequencing - Data Handling, Analysis and Applications* Date: Mon 13 June 2016 Price: £155 Registration: participant selection Deadline: Mon 16 May 2016 noon Details: https://genomics.ed.ac.uk/oxford-nanopore-minion-sequencing-data-handling-a… *"I liked this course - it's a good, well-rounded primer for this subject area." (Feb 2016)* ************************* *5-day Introduction to Python for Biologists* Date: Mon 11- Fri 15 July 2016 Price: £500 Registration: first come first serve Deadline: Mon 13 June 2016 noon Details: https://genomics.ed.ac.uk/introduction-python-biologists-july-2016 *"Great learning from someone with a biology background rather than computer science - meant we were on the same wavelength. The course really was excellent!" (Feb 2016)* *"This is the best course I have ever taken - well paced, excellent teaching, and the feeling at the end that I had learnt skills I could apply to my research." (Apr 2016)* ************************* *5-day Advanced Python for Biologists* Date: Mon 25 - Fri 29 July 2016 Price: £500 Registration: first come first serve Deadline: Mon 27 June 2016 noon Details: https://genomics.ed.ac.uk/advanced-python-biologists-july-2016 *"It was just what I needed to start writing more complex code." (Aug 2015)* ************************* *5-day Data Manipulation and Visualisation with Python* Date: Mon 5 - Fri 9 September 2016 Price: £500 Registration: first come first serve Deadline: Mon 8 August 2016 noon Details: https://genomics.ed.ac.uk/data-manipulation-and-visualization-python ************************* -- Bert Overduin, PhD TRAINING AND OUTREACH BIOINFORMATICIAN Bert.Overduin(a)ed.ac.uk orcid.org/0000-0002-5281-8838 EDINBURGH GENOMICS The University of Edinburgh Ashworth Laboratories The King's Buildings Charlotte Auerbach Road Edinburgh EH9 3FL Scotland, United Kingdom tel. +44(0)1316507403 http://genomics.ed.ac.uk The University of Edinburgh is a charitable body, registered in Scotland, with registration number SC005336.

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Network Inference workshop at ECCB2016: abstract submission deadline extended on May 22nd
by Eric Bonnet 04 May '16

04 May '16

We are glad to announce the ECCB 2016 workshop: Network Inference : New Methods and Data EXTENDED ABSTRACT SUBMISSION DEADLINE: May 22nd http://www.eccb2016.org/programme/workshops/w2/ Scope This one day session (SIG) will bring together experts from computational biology and machine learning to present recent advances in the development and application of gene regulatory network inference methods, as well as novel emerging data types (such as single-cell, epigenomics ...) suitable for network inference. The SIG will be split into two half day sessions. The first half will focus entirely on novel network inference methods, while the second half will focus on opportunities and challenges arising from new data types. Each session will feature an invited speaker and three short talks. Registration https://easychair.org/conferences/?conf=ninf2016 Venue The workshop will take place in the World Forum Convention Centre of Hague, The Netherlands on September 4th 2016 as part of the 15th European Conference on Computational Biology (ECCB 2016). Topics Network Inference Machine learning Biological networks Biological data types NGS Applications of biological network inference Audience The workshop is suitable for wide audience as computational biologists interested in networks inference, computational and experimental biologists, clinicians, plant biologists and anyone who is interested to be exposed to the latest trends and applications of network biology inference from various types of biological data. Organizing Committee: Dr. Anagha Joshi, Roslin Institute, University of Edinburgh, UK. Dr. Tom Michoel, Roslin Institute, University of Edinburgh, UK. Dr. Eric Bonnet, Centre National de Génotypage, CEA, Paris, France.

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System administrator for ELIXIR Node in Luxembourg
by Venkata Pardhasaradhi SATAGOPAM 03 May '16

03 May '16

Dear all The Luxembourg Centre for Systems Biomedicine (LCSB) at the University of Luxembourg is seeking an enthusiastic team member for the following position: System administrator for ELIXIR Node in Luxembourg (m/f) * Initial contract duration : 3 years, 40h/week, extension possible * Employee status (start date: as soon as possible) * Ref. : S-STR-4029-00-B The Luxembourg Centre for Systems Biomedicine (LCSB) is an interdisciplinary research centre at the University of Luxembourg. LCSB develops and applies systems-level approaches to gain insight into the molecular and cellular mechanisms of human diseases. Experimental and computational approaches are combined to analyse the complexity of biological systems underlying disease pathogenesis. The LCSB is pioneering the way for a predictive, preventive and personalised medicine. LCSB is currently establishing the ELIXIR (the European life-sciences Infrastructure for biological Information www.elixir-europe.org<http://www.elixir-europe.org>) national node of Luxembourg focusing on “Clinical and Translational Medicine Research Informatics”. We are looking for a System administrator for the prospective ELIXIR Node. The job owner will help to provide a secure, scalable and highly available Virtual Private Cloud (VPC) & IT environment adequate to the needs of the ELIXIR services and user community, through proactive monitoring and support of the heterogeneous hardware and software components. One important task will include the support of the whole scientific software landscape but will also include the further development and refinement of existing and upcoming software analysis pipelines. The job owner should be able to perform and lead data management / processing tasks. Your Role Duties of the position include, but are not limited to: * Perform daily duties as regards VPC configuration management, on as-needed basis * Build Inventory of VPC Equipment; Hardware, Software, Services and redundancy Procedures * Maintain and monitor support information in Ticketing System(s) and related tools * Provide system and network administration and support firewalls, network organisation, and be able to handle storage services, including fileserver-client issues * Write and maintain documentation for technical procedures, on as needed basis * Improve on procedures/practices, as advancements in the field dictate * Become the primary administrator for outsourced services/accounts (e.g. web hosting) and assist in the procurement of in-house services via external vendors, if/when so desired * Assist with system backup and recovery services and system administration tools and processes, e.g. user administration, networking, file servers; familiarity with the LAMP stack, TCP/IP networking and supporting them in tandem * Provide support for bioinformatics tools and software pipelines and be involved in their further development and refinement * Be responsible to lead bioinformatics related data analysis tasks Your Profile * Degree in computer science or bioinformatics or related fields. * Strong system administration and hardware experience including full stack up to OS virtualization is required (OpenStack / oVirt knowledge will be considered an asset). * Good computer programming experience (Python, linux scripting) * Experience with Puppet, Ansible or Chef will be considered an asset * Knowledge of modern web development technologies will be considered an asset * Excellent communication skills and the ability to articulate clearly the scientific and technical needs and to work within an interdisciplinary setting, communicating with other internal/external partners. We offer * A fully funded position with a very competitive salary. * Participate in the building of state-of-the-art translational medicine platform to support clinical projects from national, EU and beyond. * An opportunity to join the fast-growing Bioinformatics Core Facility group headed by Dr. Reinhard Schneider in the newly created LCSB. * An exciting international environment. The University is an equal opportunity employer. Further Information For questions, please contact Venkata Satagopam (venkata.satagopam(a)uni.lu<mailto:venkata.satagopam@uni.lu>). Applications (in English) should contain the following documents: * A detailed curriculum vitae * Cover letter mentioning the reference number * List of publications/infrastructure and software projects * Description of past experience and future interests * Name and addresses of three referees Please apply online until 10th June 2016. URL: http://emea3.mrted.ly/11opj -- Venkata P. Satagopam Bioinformatics Core Luxembourg Centre For Systems Biomedicine (LCSB) University of Luxembourg Campus Belval, House of Biomedicine II 6, avenue du Swing L-4367 Belvaux T +352-466-644-6421 F +352-466-644-6949 venkata.satagopam(a)uni.lu<mailto:venkata.satagopam@uni.lu> http://lcsb.uni.lu ----- This message is confidential and may contain privileged information. It is intended for the named recipient only. If you receive it in error please notify me and permanently delete the original message and any copies. -----

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BIOKDD 2016 Call for Papers
by Laukens Kris 03 May '16

03 May '16

****CALL FOR PAPERS****** 15th International Workshop on Data Mining in Bioinformatics (BIOKDD'16) August 14 2016 San Francisco, USA http://home.biokdd.org/biokdd16/ http://www.facebook.com/Biokdd The goal of the 16th International Workshop on Data Mining in Bioinformatics (BIOKDD'16) is to encourage KDD researchers to tackle the numerous challenges of mining and learning in Bioinformatics, Biomedical and Health Informatics. Thus this year, the workshop will feature the theme of “Latest Advances of Mining and Learning in Bioinformatics, Biomedical and Health Informatics”. This field focuses on the use of data mining and machine learning approaches for the analysis of the large amount of heterogeneous complex biological and medical data being generated together with innovative applications in biomedical and health informatics. The key goal is thus to build accurate predictive or descriptive models from data enabling either novel discoveries in basic biology and medicine or an effective use of the latest advances of data mining in healthcare. We encourage papers that propose novel data mining techniques for areas including but not limited to * Predictive modeling for complex phenotypes from large-scale biological data * Discovery of biological networks and pathways underlying biological processes and diseases * Processing of new/next-generation sequencing (NGS) data * Discovery of genotype-phenotype associations * Biomarker discovery in clinical and genomic data * Data analytics for clinical informatics * Data integration for biomedical applications * Comparative genomics * Metagenome analysis using sequencing data * RNA-seq and microarray-based gene expression analysis * Genome-wide analysis of non-coding RNAs * Genome-wide regulatory motif discovery * Structural bioinformatics * Correlating NGS with proteomics data analysis * Functional annotation of genes and proteins * Cheminformatics * Special biological data management techniques * Information visualization and Visual analytics for biomedical data * Predictive modeling for personalized treatment * Semantic web and ontology in Biomedicine * Privacy and security issues in genomics and healthcare * Text mining for biomedical literature and clinical notes * Information retrieval for healthcare and Biomedical applications * Biomedical signal analysis and processing * Intelligent medical data management * Collaboration technologies for biomedicine * Social networks for biomedicine **Important Dates** May 27th, 2016 Deadline for Submission of Papers June 13th, 2016 Notification of Acceptance; Workshop Registration Open June 30th, 2016 Submission of Camera-ready Papers August 14th, 2016 Workshop Presentation All deadlines are at 11:59 PM Pacific Standard Time. **Submissions** Papers should be at most 10 pages long, single-spaced, in font size 10 or larger with one-inch margins on all sides. Using the ACM Proceedings Format is highly recommended. Paper should be submitted in PDF format through EasyChair at the following link: https://easychair.org/conferences/?conf=biokdd2016 Papers will be published in the webpage. A selection of accepted papers will also be invited to be submitted to a special issue of the reputed IEEE Transactions on Computational Biology and Bioinformatics. **Workshop Organizers** Program Chairs: Sara C. Madeira, Instituto Superior Técnico, <sara.madeira(a)tecnico.ulisboa.pt> Chandan K. Reddy, Wayne State University, USA <reddy(a)cs.wayne.edu> General Chairs: Mohammed J. Zaki, Rensselaer Polytechnic Institute, <zaki(a)cs.rpi.edu> Jake Y. Chen, Indiana University - Purdue University Indianapolis, <jakechen(a)iupui.edu>

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Vacancy: PhD-position in Computational Microbiology
by Thomas Abeel - EWI 01 May '16

01 May '16

Dear all, We are looking for a PhD candidate in bioinformatics at the Delft Bioinformatics Lab at TU Delft, The Netherlands, to work on a project looking to develop rapid diagnosis of drug resistant and mixed TB infections. Project and application details below. best, Thomas * PhD-position in Computational Microbiology* *Title *Rapid diagnosis of drug resistant TB infections// *Project leader* Thomas Abeel Delft Bioinformatics Lab – Pattern Recognition and Bioinformatics – Department of Intelligent Systems Faculty of EEMCS, Delft University of Technology (TU Delft)* * *Job description* Despite treatment options, TB is killing 1.5 million people each year, the vast majority in developing nations. Current diagnostics often take several weeks or months, which is too long to save the lives of the patients or to prevent further transmission. This project collaborates with Dr. Pym of the K-RITH research institute in Durban South-Africa to develop an innovative rapid diagnostic that accurately identifies currently undiagnosable TB infections, i.e. mixed and drug resistant infections. This will be done by computationally identifying markers that are indicative of these infections in genomic data which are then used to design the diagnostic using existing sequencing technology. Your objectives in this project are to identify novel drug-resistance conferring mutations, to create a predictive model for drug resistance and mixed infections in TB and to explore the options to turn these insights into a prototype point-of-care molecular diagnostic. We have a collection of sequencing and meta-data from >8000 diverse TB strains. We now have the unique opportunity to leverage these data to make a global societal impact. You will integrate public and private data sets to associate mutations with phenotypes, such as drug resistance, with state-of-the-art computational approaches. *Requirements* The ideal candidate has an Msc degree in bioinformatics or alternatively a degree in computer science or (micro-)biology with strong affinity or experience in the complementary field. He/she must be able to work effectively in a multidisciplinary team. The candidate shares our view that communication skills are important, as is the ability to interact with peers, students and technical staff. // -Programming, algorithm development and scripting experience are desirable -Wet-lab experience is a plus -Experience in microbial genomics is a plus // *Information and application* For more information about this position, please contact Dr. T. Abeel (t.abeel(a)tudelft.nl <mailto:t.abeel@tudelft.nl>). To apply, please e-mail a detailed CV (including grades and English certification if applicable), cover letter and at least two personal letters of recommendation. Please submit your full application by June 1, 2016 to t.abeel(a)tudelft.nl <mailto:t.abeel@tudelft.nl>.More information about the section: http://bioinformatics.tudelft.nl/and the project leader: http://www.abeel.be/ *Conditions of employment *TU Delft offers an attractive benefits package, including a flexible work week and the option of assembling a customised compensation and benefits package. Salary and benefits are in accordance with the Collective Labour Agreement for Dutch Universities. As a PhD candidate you will be enrolled in the TU Delft Graduate School. TU Delft Graduate School provides an inspiring research environment; an excellent team of supervisors, academic staff and a mentor; and a Doctoral Education Programme aimed at developing your transferable, discipline-related and research skills. Please visit www.phd.tudelft.nl for more information.

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CPW2016 - Bioinformatics and computational pathology summit
by Yves Sucaet 29 Apr '16

29 Apr '16

CALL FOR ABSTRACTS: CPW2016 - Bioinformatics and computational pathology summit When? Saturday, September 3, 2016. Where? Den Hague, Netherlands (during ECCB2016) Website? http://cpw.pathomation.com Digital pathology is increasingly used to study biological processes and diseases as novel molecular probing and imaging techniques allow the measurement of single molecules in whole tissue sections. Resulting multi-gigapixel images can be viewed on a computer screen via dedicated software. However, automated analysis of such large-scale datasets is challenging and their combination with omics data is not trivial. This workshop wants to facilitate bridging opportunities between the bioinformatics and tissue image analysis communities. This first edition is organised as a full-day workshop during ECCB 2016 (http://www.eccb2016.org) KEYNOTE SPEAKERS: The following keynote speakers have already agreed to speak at the conference: Jeroen Van der Laak, UMC Radboud Jeffrey Fine, Magee-Womens Hospital of UPMC SUBMISSIONS: The conference solicits oral talks, posters, and proceeding papers contributions of original work or work that was recently accepted or published in a peer-reviewed journal or at a high level international conference. In the latter case, the publication reference should be clearly mentioned, and the abstracts should be checked mainly for relevance, rather than receive a full review. Conference proceedings will be published by the Journal of Pathology Informatics. The program committee will decide which contributions are selected for an oral presentation, and which ones are presented during a poster session. For submission instructions, please refer to https://www.fourwav.es/view/265/info/. SCOPE: Computational pathology exists at the interphase between bioinformatics, machine learning, and digital pathology (microscopy). Submissions from all topics of interest are welcome (non-exhaustive list): Machine learning and image analysis for quantification in digital pathology (in 2D & 3D), Novel approaches (e.g. spatial or graph-based methods) to extract high-level features (e.g. molecular networks or spatial expression patterns) from tissue images for systems pathology, Software development methodologies and tools to ease the exploitation of large tissue images and integration with omics data, Novel molecular imaging techniques on tissues (molecular pathology, next generation pathology) and their analysis challenges, e.g. in situ hybridization, mass spectrometry imaging of formalin-fixed paraffin-embedded tissues, mass cytometry, and other spectroscopy techniques (Raman,...)... Research applications on non-human model organisms KEY DATES: Submission deadline: May 31, 2016. Notification of acceptance: June 30, 2016. Conference: September 3, 2016. Organizing committee: Yves Sucaet, Vrije Universiteit Brussel, Belgium Jeroen Van der Laak, UMC Radboud, Netherlands Marius Nap, HistoGeneX, Belgium and Rigshospitalet Copenhagen, Denmark Zev Leifer, New York College of Podiatric Medicine, USA Yukako Yagi, Harvard Medical School & Massachusetts General Hospital, USA Raphaël Marée, Université de Liège, Belgium David Ameisen, IRIF, CNRS and Université Paris Diderot, France Paul Van Diest, UMC Utrecht, Netherlands

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Call for Applications for ECCB 2016 - deadline May 16
by Femke Francissen 29 Apr '16

29 Apr '16

*Call for Applications for ECCB 2016 - extended submission deadline: May 16* The European Conference on Computational Biology <http://www.eccb2016.org> (ECCB 2016) started a new initiative to promote application of computational biology in industry and other fields beyond academia. *What is the aim of the Applications track <http://www.eccb2016.org/calls/applications/>?* The aim of the track is to give a voice to those who apply computational biology in industry, clinics, governmental organizations, and other fields beyond academia. With advanced science and technology finding its ways everywhere, many clinicians, analysts, data scientists have more and more to share with scientists in academia. A plethora of scientists currently works outside of academia, and may not be interested or are sometimes restricted to publish, thus making themselves and their work invisible to the academic community. This track is a platform for presenting such applications, some of which may well be untraditional or otherwise not often heard at academic conferences. *Examples of submissions* Examples of submissions that we envision include computational applications, software, services, infrastructure or combinations of these that are developed for beyond-academia applications e.g. for pharmaceutical industry, biotech startups, clinics. Academic developments which do not have yet the beyond-academia component but have clearly outlined potential for it, are also welcome. *Dont't we already have applications presented at ECCB and other CB conferences? * Absolutely. Computational biology is by its nature about applying computational tools in biology. The difference of this track from many applied sessions at ECCB is bridge the academia and other applications fields of CB and to cross-disseminate both sides. This is an open track alongside the ELIXIR Applications track which is mainly devoted to the participants of ELIXIR. *I'm in academia, can I submit an abstract? * Yes, please do if you feel that A) your applications cross the boundaries of traditional academic science, or B) your developments are directly relevant beyond academia or have potential for it. *Read more about the review criteria and submission guidelines here: http://www.eccb2016.org/calls/applications/ <http://www.eccb2016.org/calls/applications/>* *Submission deadline: May 16, 2016* For questions about the Applications track, please contact: applications(a)eccb2016.org For other ECCB 2016 related questions contact: info(a)eccb2016.org ** **

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Benelux Machine Learning conference 12-13/9 in Kortrijk
by Katrijn Vannerum 29 Apr '16

29 Apr '16

CALL FOR ABSTRACTS: BENELEARN 2016 September 12-13, 2016. Kortrijk, Belgium http://www.kuleuven-kulak.be/benelearn/ Benelearn is the annual machine learning conference of Belgium and The Netherlands. It serves as a forum for researchers to exchange ideas, present recent work, and foster collaboration in the broad field of Machine Learning and its applications. The 25th edition will be co-organised by KU Leuven, UGent and the Flemish Supercomputer Centre at the Katholieke Universiteit Leuven, Campus Kortrijk (KULAK). In contrast to previous editions, the anniversary edition of Benelearn will be organised on two days, where the first day will feature a workshop on Big Data, including keynote speakers, a tutorial session, corporate presentations, and ample opportunity for networking. KEYNOTE SPEAKERS: The following keynote speakers have already agreed to speak at the conference: Jeff Ullman (Stanford University) Christian Blum (University of the Basque Country) Hugo Ceulemans (Janssen R&D) Greg Tsoumakas (Aristotle University of Thessaloniki) Emilia Barakova (Technische Universiteit Eindhoven) SUBMISSIONS: The conference solicits abstract contributions (2 pages max.) of original work or work that was recently accepted or published in a peer-reviewed machine-learning journal or at a high level international conference. In the latter case, the publication reference should be clearly mentioned, and the abstracts should be checked mainly for relevance, rather than receive a full review. The program committee will decide which contributions are selected for an oral presentation, and which ones are presented during a poster session (with spotlight presentations). Submissions related to Big Data analysis will preferably be presented on the thematic day. All accepted contributions will be published on the Benelearn website, but no copyright will be claimed. For submission instructions, please refer tohttp://www.kuleuven-kulak.be/benelearn/. SCOPE: Although we particularly encourage submissions related to learning from Big Data, submissions from all topics of interest within machine learning are welcome (non-exhaustive list): Kernel Methods Bayesian Learning Case-based Learning Causal Learning Ensemble Methods Computational Learning Theory Data Mining Evolutionary Computation Inductive Logic Programming Knowledge Discovery in Databases Online Learning Learning in Multi-Agent Systems Neural Networks Deep Learning Reinforcement Learning Robot Learning Feature Selection and Dimensionality Reduction Scientific Discovery Transfer Learning Statistical Learning Ranking / Preference Learning / Information Retrieval Computational models of Human Learning Structured Output Learning Learning for Language and Speech Media Mining and Text Analytics Learning and Ubiquitous Computing Applications of Machine Learning KEY DATES: Submission deadline: June 1, 2016. Notification of acceptance: July 1, 2016. Conference: September 12-13, 2016. Organizing committee: Celine Vens (KU Leuven) Patrick De Causmaecker (KU Leuven) Yvan Saeys (UGent) Ewald Pauwels (VSC) -- ====================================================================== Prof. dr. Yvan Saeys VIB Group Leader Data mining and modeling for biomedicine Inflammation Research Center, a VIB-UGent Department UGent Department of Internal Medicine, Respiratory Medicine (GE01) Technologiepark 927 , B-9052 Zwijnaarde , Belgium Tel : +32(0)9 331 37 40 Fax : +32(0)9 221 76 73 Mailto: yvan.saeys(a)ugent.be http://www.dambi.ugent.be ======================================================================

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Junior assistant position at Ghent University
by Tim De Meyer 28 Apr '16

28 Apr '16

Dear colleagues, we have a job opening for a junior assistant at the Dept. of Mathematical Modelling, Statistics and Bioinformatics of Ghent University (Faculty of Bioscience Engineering). The candidate should have a particular interest in omics and bioinformatics research and education and is expected to pursue a PhD. More information about the position and the application procedure can be found here: https://edit.ugent.be/nl/vacatures/aap/voltijds-assistent-17/ https://edit.ugent.be/en/work/vacancies/assisting/full-time-junior-assistant -10/ Please forward to potentially interested candidates, thanks! Best regards, Tim De Meyer Dr. Ir. Tim De Meyer, Associate Professor Bioinformatics Institute Ghent Nucleotides 2 Networks (BIGN2N) BIOBIX Lab. of Bioinformatics and Computational Genomics Dept. Mathematical Modelling, Statistics and Bioinformatics Faculty of Bioscience Engineering - Ghent University Campus Coupure, A, Coupure Links 653, B9000 Ghent, Belgium <mailto:Tim.DeMeyer@UGent.be> Tim.DeMeyer(a)UGent.be +3292645987 www.bigN2N.be www.biobix.be cid:image007.jpg@01D08CC7.326402A0

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'STATS COURSE - DNA taxonomy using R'
by Oliver Hooker 28 Apr '16

28 Apr '16

"Advances in DNA taxonomy" Instructors - Prof. Ziheng Yang and Dr. Diego Fontaneto This course will run from 8th – 11th August 2016 at SCENE Field Station, Loch Lomond national park, Scotland http://prstatistics.com/course/advances-in-dna-taxonomy-dntx/ Course content is as follows Day 1 • Introduction to DNA taxonomy • The applied ecological approach and the theoretical evolutionary approach. • What is needed to perform DNA taxonomy. • How to get data. • Phylogenetic reconstruction using distance-based and parsimony methods. • Introduction on NJ, UPGMA, parsimony; when and why they can be used for DNA taxonomy. • Computer practical. Day 2 • Phylogenetic reconstructions • Using Maximum Likelihood with computer practical on Maximum Likelihood. • Using Bayesian Inference with computer practical on Bayesian Inference. Day 3 • Single-locus DNA taxonomy. • Most commonly used methods Rationale and use for fixed threshold, ABGD, K/theta, PTP, GMYC with computer practicals. • Other methods, Haplowebs, bGMYC, etc. with computer practicals Day 4 • Multi-locus DNA taxonomy with computer practicals Please email any inquiries to oliverhooker(a)prstatistics.com or visit our website www.prstatistics.com Please feel free to distribute this material anywhere you feel is suitable Upcoming courses - email for details oliverhooker(a)prstatistics.com ADVACNING IN STATISTICAL MODELLING USING R (May) TIME SERIES MODELS FOR ECOLOGISTS AND CLIMATOLOGISTS USING R (May) INTRODUCTION TO PYTHON FOR BIOLOGISTS (May) GENETIC DATA ANALYSIS USING R (August) BIOINFORMATICS USING LINUX (August) INTRODUCTION TO BAYESIAN HIERARCHICAL MODELLING (August) PHYLOGENETIC DATA ANALYSIS USING R (October) MODEL BASED MULTIVARIATE ANALYSIS OF ECOLOGICAL DATA USING R (October) LANDSCAPE (POPULATION) GENETIC DATA ANALYSIS USING R (October) APPLIED BAYESIAN MODELLING FOR ECOLOGISTS AND EPIDEMIOLOGISTS (October) Dates still to be confirmed - email for details oliverhooker(a)prstatistics.com STABLE ISOTOPE MIXING MODELS USING SIAR, SIBER AND MIXSIAR USING R INTRODUCTION TO R AND STATISTICS FOR BIOLOGISTS Oliver Hooker PR Statistics -- Oliver Hooker PR statistics 3/1 128 Brunswick Street Glasgow G1 1TF +44 (0) 7966500340 www.prstatistics.com www.prstatistics.com/organiser/oliver-hooker/

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