Revision 7 as of 2015-01-09 13:28:51

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PythonMed

This page attempts to collect all the Python packages associated with medicine, pre-clinical research, life science and bioinformatics for the community. Its modelled along the Debian Med project

Biopython

Biopython facilitates the use of Python for bioinformatics through high-quality, reusable modules and classes. Biopython features include parsers for various Bioinformatics file formats (BLAST, Clustalw, FASTA, Genbank,...), access to online services (NCBI, Expasy,...), interfaces to common and not-so-common programs (Clustalw, DSSP, MSMS...), a standard sequence class, various clustering modules, a KD tree data structure, etc.

pysam

pysam is a Python wrapper package around Samtools, a suite of programs for reading and manipulating high-throughput sequencing data.

DendroPy

DendroPy is a package for phylogenetic computing. It supports a wide range of phylogenetic tree formats and can be used both as a phylogenetic library and for scripting.


CategoryPythonInScience

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