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Question: Mpileup Tool
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gravatar for Keith Funkhouser
7.2 years ago by
Keith Funkhouser • 10
Keith Funkhouser • 10 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 • 1.1k views
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modified 7.2 years ago by Keith Funkhouser • 10 • written 7.2 years ago by Keith Funkhouser • 10
0
gravatar for Keith Funkhouser
7.2 years ago by
Keith Funkhouser • 10
Keith Funkhouser • 10 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 COMMENT • link written 7.2 years ago by Keith Funkhouser • 10
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 REPLY • link written 7.2 years ago by Jennifer Hillman Jackson ♦ 25k
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