Feature request: set @RG header(s)

[matthdsm]

Hi,

Would you be able to add a flag that allows adding more tags to the @RG header line, next to --RGID and --RGSM?
This could look like the --rg flag from Bowtie2 or the -R flag from BWA mem/BWA-MEM2.

Ideally, when aligning from uBam, the @RG header line(s) could be copied from the uBam input, while preserving the RG tag in the reads.

Thanks
M

[FriederikeHanssen]

It would in addition be great to get a bit more documentation on the available parameters for readgroups (and in general) 😃

Thank you for providing this tool 🙏