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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Newer release available (0.24.0)

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Credits

Author: Andreas Heger

License

MIT

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0.24.0

43 files

0.23.3

37 files

0.23.2

37 files

Yanked

0.23.1

37 files

Yanked reason: Pysam 0.23.1 broke binary compatibility for Cython projects.

0.23.0

31 files

0.22.1

27 files

0.22.0

27 files

0.21.0

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0.20.0

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0.19.1

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0.18.0

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0.17.0

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