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Originally posted by Heisman
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The GATK manual seems to use the b37 data and in some work we've done in collaboration with the Broad they've used that as well so if it's good enough for them it's good enough for me. I'd still like to know the difference though, if I find out I'll post it here - thanks for your help. -
Any update on difference between b37 and hg19 in GATK bundle?Comment
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My experience working with GATK package is that not only the naming of the chromosomes but also their order in the FASTA file matter.
Best regards,
Douglas
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