search

DavidsonGroup / flexiplex

The Flexible Demultiplexer
https://davidsongroup.github.io/flexiplex/
MIT License
26 stars 2 forks source link

add CB UB tag to fastq id field #46

Closed ChangqingW closed 2 months ago

ChangqingW commented 2 months ago

Minimap2 support including cell barcode and UMI tag from FASTQ id field to the SAM output. They need to be included as \tCB:Z:barcode\tUB:Z:umi.

> man minimap2
...
-y        Copy input FASTA/Q comments to output.

oarfish has a single-cell mode that requires the CB tag, see: https://github.com/COMBINE-lab/oarfish/releases/tag/v0.6.1 https://github.com/COMBINE-lab/oarfish/issues/31