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keep track of unmapped reads #9

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scarbonellsala opened this issue Jun 11, 2024 · 1 comment

scarbonellsala commented Jun 11, 2024

Currently, the "unmapped reads" coming from Minimap2 are discarded by LyRic. Is it possible to create a bam file for "unmapped reads" to tack them?

emi80 changed the title ~~keep tack of unmapped reads~~ keep track of unmapped reads

diekhans commented Jun 11, 2024 via email

How about keeping the BAM before filter? That way you have the complete alignment results in one file.

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