Run ReorderSam faster with

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efratushava

• January 28, 2020 08:40

Hi,

 

It's written https://gatk.broadinstitute.org/hc/en-us/articles/360036366272-ReorderSam-Picard- that for the Picard ReorderSam tool, it "Runs substantially faster if the input is an indexed BAM file".

 

I wanted to ask-What does it mean? Do I need to give the file.bam.bai as input? I tried that, and it didn't work...

 

Thanks! 

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  Bhanu Gandham

  • January 28, 2020 23:36

  Hi efratushava

  It means that if there is a bam indexed file(.bai file), it will run faster. You don't need to input an index file, the index file just needs to be in the same location as the bam file.

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