Supported Applications


  • Description

    a python module that makes it easy to read and manipulate genomic data sets. It is a lightweight wrapper of the htslib C-API; it provides facilities to read and write SAM/BAM/VCF/BCF/BED/GFF/GTF/FASTA/FASTQ files as well as access to the command line functionality of the SAMtools and BCFtools packages.

    Pysam is installed as a module within python.

  • Installation

    Use the following command to install this title with the CLI client: $ sbgrid-cli install pysam Copy to clipboard
  • Citation Note

    Users of the program should cite the url https://github.com/pysam-developers/pysam
  • Keywords

    Python Module, Utilities

  • Default Versions

    Linux 64:
    OS X INTEL:  0.8.3

  • Other Versions

      Linux 64:

  • Developers

    Andreas Heger, Kevin Jacobs