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The mannual scatter-gather of BQSR output differs from gatk-queue BQSR scatter-gather run

yaohuyaohu beijingMember

Hi,
I tried to run BQSR 32 times parrallely each with a contig I specified using -L option, there are no spaces between the contigs, then I gathered the reports with GatherBqsrReports tool. The output seems have large difference with the default gatk-queue scatter-gather BQSR run. I dont know why is this, could anybody explain that to me or give me some advice? thanks so much

Issue · Github
by Sheila

Issue Number
1197
State
closed
Last Updated
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vdauwera

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Answers

  • yaohuyaohu beijingMember

    Hi @shlee ,

    Thanks for the quick reply, the link is very helpful.

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