pysam
Project description
The SAM/BAM/CRAM format is a way to store efficiently large numbers of alignments, such as those routinely are created by next-generation sequencing methods.
This module provides a low-level wrapper around the htslib C-API as using cython and a high-level API for convenient access to the data in SAM/BAM formatted files. Also included is an interface to the samtools command line utilities and the tabix C-API for reading compressed and indexed tabular data.
The current version wraps htslib-1.2.1 and samtools-1.2.
See: http://www.htslib.org https://github.com/pysam-developers/pysam http://pysam.readthedocs.org/en/stable
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