Question: how to extract mapped reads from output of BWA-MEM to a separate file?
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jerrry113 • 0 wrote:
Hello all,
By default, BWA-MEM on the main galaxy server does not seem to give an option to write the mapped or unmapped reads in an alignment run to its own separate file. Is there a utility available on Galaxy that I can use to parse through the BAM output for just the reads that aligned? Thanks!
- Jerry
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modified 2.4 years ago
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y.hoogstrate • 460
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written
2.5 years ago by
jerrry113 • 0
