pysam

Project description

pysam - a python module for reading, manipulating and writing genomic data sets.

pysam is a lightweight wrapper of the htslib C-API and 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. The module supports compression and random access through indexing.

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 within standard genomic file formats.

The current version wraps htslib-1.3.1, samtools-1.3.1 and bcftools-1.3.1.

See: http://www.htslib.org https://github.com/pysam-developers/pysam http://pysam.readthedocs.org/en/stable

Project details

Release history Release notifications | RSS feed

0.23.0

Feb 5, 2025

0.22.1

Apr 24, 2024

0.22.0

Oct 5, 2023

0.21.0

Apr 9, 2023

0.20.0

Oct 28, 2022

0.19.1

May 26, 2022

0.19.0

Mar 29, 2022

0.18.0

Nov 16, 2021

0.17.0

Sep 30, 2021

0.16.0.1

Jun 16, 2020

0.16.0

Jun 7, 2020

0.15.4

Jan 19, 2020

0.15.3

Jul 28, 2019

0.15.2

Jan 10, 2019

0.15.1

Sep 13, 2018

0.15.0

Jul 28, 2018

0.14.1

Mar 20, 2018

0.14

Feb 9, 2018

0.13

Nov 4, 2017

0.12.0.1

Sep 7, 2017

0.12

Aug 24, 2017

0.11.2.2

Jun 8, 2017

0.11.2.1

May 13, 2017

0.11.2

May 12, 2017

This version

0.11.1

Apr 23, 2017

0.11

Apr 12, 2017

0.10.0

Jan 22, 2017

0.9.1.4

Jul 18, 2016

0.9.1.3

Jul 1, 2016

0.9.1.2

Jun 25, 2016

0.9.1.1

Jun 22, 2016

0.9.1

Jun 14, 2016

0.9.0

Mar 1, 2016

0.8.4

Nov 9, 2015

0.8.3

Apr 29, 2015

0.8.2.1

Feb 18, 2015

0.8.2

Feb 17, 2015

0.8.1

Nov 23, 2014

0.8.0

Jul 16, 2014

0.7.8

May 12, 2014

0.7.7

Nov 27, 2013

0.7.6

Oct 2, 2013

0.7.5

Jul 29, 2013

0.7.4

Jan 31, 2013

0.7.3

Jan 25, 2013

0.7.2

Jan 23, 2013

0.7.1

Jan 16, 2013

0.7

Nov 23, 2012

0.6

Dec 7, 2011

0.4.1

Feb 14, 2011

0.4

Feb 10, 2011

0.3.1

Nov 2, 2010

0.3

Aug 4, 2010

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