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bigdatagenomics / bdg-formats

Open source formats for scalable genomic processing systems using Avro. Apache 2 licensed.
Apache License 2.0
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Add barcodes field to ReadGroup #182

Closed heuermh closed 5 years ago

heuermh commented 5 years ago

See htsjdk commit https://github.com/samtools/htsjdk/commit/5ef92236f5ae5fd53baa7d0aea1313e8bdb37234#diff-26954dc980a2aa8e7caddc4d900f478a

heuermh commented 5 years ago

I'm thinking of closing this as WontFix. We already support the BC tag via attributes, and I find the implementation in htsjdk hacky at best (what about the other barcode tags? what about the barcode sequence quality tags?).

SAM spec

1.3 Barcodes

DNA barcodes can be used to identify the provenance of the underlying reads.
There are currently three varieties of barcodes that may co-exist: Sample Barcode,
Cell Barcode, and Unique Molecular Identifier (UMI).
heuermh commented 5 years ago

Closing as WontFix