Question: Mpileup Tool
0
gravatar for Keith Funkhouser
6.9 years ago by
Keith Funkhouser10 wrote:
Hi all, It seems that the more recent "mpileup" tool that is a part of SAMtools offer better indel prediction than the current "pileup" tool. I've found the following thread http://gmod.827538.n3.nabble.com/samtools-mpileup-update- td3277940.html ...and the following issue https://bitbucket.org/galaxy/galaxy-central/issue/524/implement- wrappers-for-mpileup-and ...regarding the topic. Is there community demand for this new tool implementation in Galaxy, or is it already in the works? Thanks, Keith Funkhouser
gmod mpileup samtools bam • 958 views
ADD COMMENTlink modified 6.9 years ago by Keith Funkhouser10 • written 6.9 years ago by Keith Funkhouser10
0
gravatar for Keith Funkhouser
6.9 years ago by
Keith Funkhouser10 wrote:
Hi all, It seems that the more recent "mpileup" tool that is a part of SAMtools offer better indel prediction than the current "pileup" tool. I've found the following thread http://gmod.827538.n3.nabble.com/samtools-mpileup-update- td3277940.html ...and the following issue https://bitbucket.org/galaxy/galaxy-central/issue/524/implement- wrappers-for-mpileup-and ...regarding the topic. Is there community demand for this new tool implementation in Galaxy, or is it already in the works? Thanks, Keith Funkhouser
ADD COMMENTlink written 6.9 years ago by Keith Funkhouser10
Hi Keith, A SAMTools update is being discussed internally. I can't comment yet about when exactly this would be implemented, but when the time comes the details would be made public in the Galaxy Announcements and News Brief: http://galaxyproject.org/wiki/News There are also a few bitbucket tickets related to particular SAMTools modules, with this one being specific for mpileup: http://bitbucket.org/galaxy/galaxy-central/issue/524 Best, Jen Galaxy team -- Jennifer Jackson http://usegalaxy.org http://galaxyproject.org/Support
ADD REPLYlink written 6.9 years ago by Jennifer Hillman Jackson25k
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