Question: HaplotypeCaller tool on galaxy
gravatar for ib7
21 months ago by
United Kingdom
ib70 wrote:

is haplptypecaller form gatk avaialble on galaxy? icant seem to find it. There is UnifiedGenotyper, but the GATK website says "This tool has been deprecated in favor of HaplotypeCaller, a much more sophisticated variant caller that produces much better calls, especially on indels, and includes features that allow it to scale to much larger cohort sizes."

thanks ib7

galaxy gatk deprecated • 669 views
ADD COMMENTlink modified 21 months ago by Jennifer Hillman Jackson25k • written 21 months ago by ib70
gravatar for vladimir.gritsenko
21 months ago by
Tel Aviv University
vladimir.gritsenko90 wrote:

Seems that GATK's license is too restrictive for Galaxy, so HaplotypeCaller won't be added in the foreseeable future. See Jennifer Jackson's answer and advice regarding alternative SNP callers here:

ADD COMMENTlink written 21 months ago by vladimir.gritsenko90
Please log in to add an answer.


Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 16.09
Traffic: 168 users visited in the last hour