How to extract specific location in .bam files
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12 months ago

I would like to make a minimal example of my wgs .bam and .bam.bai files to accelerate pipeline testing. For example, i would like to select chr1:1-1e7 & chr1:1-1e7 regions and create that same .bam .bai file from them. How to accomplish that?

bam • 296 views
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Entering edit mode
12 months ago
GenoMax 122k

Using samtools view : Extract Reads From A Bam File That Fall Within A Given Region Check help page for samtools view for detailed options.

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