How to run Best Practices on parts of bam files

astrandastrand New YorkMember

Hi,

So far, I have only tried running Best Practices on bam files where each bam file corresponds to a certain chromosome. How do I go about partitioning the bam files further and running Best Practices on parts of bam files? I want to make my pipeline even more efficient.

Thanks for your help,
Alva

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