Pysam¶
Pysam is a python module for reading and manipulating Samfiles. It's a lightweight wrapper of the samtools C-API. Pysam also includes an interface for tabix.
https://github.com/pysam-developers/pysam
Available modules¶
The overview below shows which Pysam installations are available per target architecture in EESSI, ordered based on software version (new to old).
To start using Pysam, load one of these modules using a module load command like:
(This data was automatically generated on Thu, 10 Jul 2025 at 02:03:58 UTC)
| aarch64/generic | aarch64/neoverse_n1 | aarch64/neoverse_v1 | aarch64/nvidia/grace | x86_64/generic | x86_64/amd/zen2 | x86_64/amd/zen3 | x86_64/amd/zen4 | x86_64/intel/cascadelake | x86_64/intel/haswell | x86_64/intel/icelake | x86_64/intel/sapphirerapids | x86_64/intel/skylake_avx512 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| Pysam/0.22.0-GCC-12.3.0 | x | x | x | x | x | x | x | x | x | x | x | x | x |
| Pysam/0.21.0-GCC-12.2.0 | x | x | x | x | x | x | x | x | x | x | x | x | x |