recipe pysam

Pysam is a python module for reading and manipulating Samfiles. It is a lightweight wrapper of the samtools C-API. Pysam also includes an interface for tabix.

Homepage

https://github.com/pysam-developers/pysam

License

MIT

Recipe

/pysam/meta.yaml

Links

biotools: pysam, doi: 10.1093/bioinformatics/btp352

package pysam

(downloads) docker_pysam

Versions

0.15.2-3, 0.15.2-2, 0.15.2-1, 0.15.2-0, 0.15.1-0, 0.15.0.1-1, 0.15.0.1-0, 0.15.0-0, 0.14.1-1, 0.14.1-0, 0.14.0-2, 0.14.0-1, 0.14.0-0, 0.13.0-0, 0.12.0.1-2, 0.12.0.1-1, 0.12.0.1-0, 0.11.2.2-2, 0.11.2.2-1, 0.11.2.2-0, 0.11.2.1-0, 0.11.1-0, 0.11.0-0, 0.10.0-8, 0.10.0-7, 0.10.0-6, 0.10.0-5, 0.10.0-4, 0.10.0-3, 0.10.0-1, 0.9.1.4-1, 0.9.1.4-0, 0.9.1-6, 0.9.1-5, 0.9.1-4, 0.9.1-3, 0.9.1-2, 0.9.1-1, 0.9.1-0, 0.9.0-2, 0.9.0-1, 0.9.0-0, 0.8.4-0, 0.8.4pre0-0, 0.8.3-6, 0.8.3-5, 0.8.3-4, 0.8.3-3, 0.8.3-2, 0.8.3-1, 0.8.3-0, 0.7.7-3, 0.7.7-2, 0.7.7-1, 0.7.7-0

Depends bcftools

1.9.*

Depends curl

>=7.64.1,<8.0a0

Depends htslib

>=1.9,<1.10.0a0

Depends libdeflate

>=1.0,<1.1.0a0

Depends libgcc-ng

>=7.3.0

Depends python

>=2.7,<2.8.0a0

Depends samtools

1.9.*

Depends zlib

>=1.2.11,<1.3.0a0

Requirements

Installation

With an activated Bioconda channel (see 2. Set up channels), install with:

conda install pysam

and update with:

conda update pysam

or use the docker container:

docker pull quay.io/biocontainers/pysam:<tag>

(see pysam/tags for valid values for <tag>)