Samtools

Please confirm there isn't an open request for this package

• I have searched through package addition requests

Homepage

https://www.htslib.org/

Maintainer

• Would you like to be the maintainer for this package?

Why should this be included in the repository?

Samtools is a suite of programs for interacting with DNA sequencing data. It consists of three separate repositories:

• Samtools (for SAM/BAM/CRAM files)
• BCFtools (for BCF2/VCF/gVCF files)
• HTSlib (the lib behind both of them)

I have Samtools and HTSlib packaged locally and could also add BCFtools (I'm not really sure whether these should be one or three packages? the naming makes it a bit confusing).

Are we allowed to redistribute it?

MIT

What kind of user will use this package, and how many users do you think will use this package?

An important little tool for bioinformaticians, or any user that wants to peek into some genome files :)

Link to source archive file

https://github.com/samtools/samtools/releases/download/1.22.1/samtools-1.22.1.tar.bz2

Start with the linked Samtools 1.22.1 source archive and the package repository's existing package-addition examples. Resolve whether Samtools, BCFtools, and HTSlib should be packaged together or separately, then verify the resulting package builds and provides the requested command-line tools.