Support for STAR alignment feeding using WithinBAM output

Kingsford-Group / squid

SQUID detects both fusion-gene and non-fusion-gene structural variations from RNA-seq data

BSD 3-Clause "New" or "Revised" License

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Support for STAR alignment feeding using WithinBAM output #29

Open rannick opened 2 years ago

rannick commented 2 years ago

--chimOutType SeparateSAMold will be deprecated from STAR. Would it be possible to migrate to a single bam file feed as in bwa to make squid future-proof?