Dear Claire,
Hello Claire,
_1) View alignment:_ when I click on the button, Java web Start gets launched, "Checking for latest version" then I get this message:
Java Web start: Download Error Unable to launch AlignView: a Sequence Alignment Viewer.
Details: An error occurred while launching/running the application.
Title: AlignView: A Sequence Alignment Viewer Vendor: VIB :: Plant Systems Biology :: Thomas Abeel Category: Download Error
Unable to load resource: http://bioinformatics.psb.ugent.be/webtools/alignview/alignview-0.6.jar
Which steps should I take to reproduce this error? I have just now tried to view the aligment for Esi0009_0001 and I encountered no problems.
_2) ESTs: _EST is incompatible with the predicted model: is there any way to retrieve easily ESTs sequences from the annotation page, in order to check what is wrong with them (or the gene prediction? Should I do it with Artemis (see below)?
If you open a certain locus in artemini you also get the EST information with it (tagged as Blastn_hit, purple colour). An other possibility (if you want the EST sequences itself) would be to do a blast with the CDS from a certain model against the EST database. you can then download the hit sequences by clicking on the 'F' next to each hit name (in the alignment section). best regards, lieven
_3) Artemis_: I have tried to install it on my computer (PC with Windows). So far I have downloaded the file artemis.jar. My Java version is 1.5.0_08 When I double-click on it, I get the following message: Java Virtual Machine Launcher : Invalid or corrupt jar file c:\Program files\artemis.jar
Can you help?
You should not download the artemis.jar file. The Artemis version within the BOGAS platform, called Artemini, is modified from the original Artemis program. This is again a Java Webstart Application. To launch Artemini for a locus, you can select 'Modify using Artemini' under the header 'Gene Structure' on the page that shows after you click the 'Modify This record' button.
kind regards, Thomas _______________________________________________ Beg-bogas mailing list Beg-bogas@psb.ugent.be https://maillist.psb.ugent.be/mailman/listinfo/beg-bogas