Sean, Anton and Jen,
Thanks for all of the suggestions (in separate replies) on how to better
analyze my SelectSure captured Exome data. My original work-flow is below in
the e-mail string.
Based on the suggestions, I plan to change my work-flow by increasing my
quality filter from 20 to
Mike:
Realignment and recalibration is not yet possible on the main site. However, we
are working on several re-sequencing projects in house where these tools are
used and will bring them to Galaxy by ISMB conference in Vienna.
The indel analysis at the moment is rather simplistic (yet still
Jeremy,
Thank you very much for this information. One quick question.
I added the gene_id values to the 10th column of my patched GTF file. After
uploading it to Galaxy, the column doesn't have a name (i.e. column 1 =
Seqname; column 2 = Source; etc...). Do I need to assign
3 matches
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