Supported Applications
Pysam
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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.
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Usage
To list all executables provided by Pysam, run:$ sbgrid-list pysam -
Installation
Use the following command to install this title with the CLI client:$ sbgrid-cli install pysamAvailable operating systems: Linux 64, OS X INTEL -
Citation Note
Users of the program should cite the url https://github.com/pysam-developers/pysam
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Keywords
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Default Versions
Linux 64: 0.9.1.4 (2.3 KB)
OS X INTEL: 0.8.3 (2.2 KB) -
Other Versions
Linux 64:
0.8.3 (2.4 KB) -
OS X INTEL:
Developers
Andreas Heger, Kevin Jacobs