CGATOxford / UMI-tools

Tools for handling Unique Molecular Identifiers in NGS data sets
MIT License
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question about how to prepare bam #569

Closed anoronh4 closed 1 year ago

anoronh4 commented 1 year ago

is it required that the bam be sorted by coordinate before running umitools dedup?

TomSmithCGAT commented 1 year ago

Yes. Sorted and indexed. See https://umi-tools.readthedocs.io/en/latest/QUICK_START.html?highlight=sort#step-4-mapping for examples samtools commands