pysam
Genomics parser
A lightweight Python package for reading and manipulating genomics data in the SAM/BAM format.
Pysam is a Python package for reading, manipulating, and writing genomics data such as SAM/BAM/CRAM and VCF/BCF files. It's a lightweight wrapper of the HTSlib API, the same one that powers samtools, bcftools, and tabix.
790 stars
47 watching
274 forks
Language: Cython
last commit: 3 months ago
Linked from 1 awesome list
bioinformaticshtslibngspython
uhub/awesome-cRelated projects:
| Repository | Description | Stars |
|---|---|---|
 pymssql/pymssql | A Python interface to Microsoft SQL Server | 842 |
 pgularski/pysm | A versatile Python State Machine library for building flexible and scalable state-based systems | 73 |
 madprime/python-gedcom | Provides tools for parsing and manipulating ancestry data stored in GEDCOM files | 64 |
 pachterlab/gget | Enables efficient querying of genomic databases using a modular approach and multiple tools | 955 |
 osmocom/pysim | Tools and libraries for working with SIM/USIM/ISIM/HPSIM/eUICC cards in cellular networks | 349 |
 samtools/htslib | Provides access to common file formats used in high-throughput sequencing data | 815 |
 simonom/pycham | A Python box model for simulating indoor environments and aerosol microphysics | 51 |
 tktech/pysimdjson | Fast JSON parsing for Python, using SIMD instructions when available | 648 |
 esmg/pyroms | Tools for processing input and output files from the Regional Ocean Modeling System | 141 |
 etingof/pysmi | Tool for parsing and converting SNMP MIBs into various formats | 137 |
 sunqm/pyscf | A Python module for performing quantum chemical simulations of chemistry. | 68 |
 pysal/pysal | A comprehensive Python library for geospatial data science and analysis, providing tools for spatial statistics, graph construction, and exploratory data analysis. | 1,346 |
 pyparsing/pyparsing | A Python library for building and executing grammars using a parsing-expression grammar approach | 2,247 |
 pybamm-team/pybamm | A software framework for simulating complex battery models with high performance and flexibility. | 1,135 |
 scm-nv/plams | A toolkit for automating molecular simulation workflows and post-processing computational chemistry calculations. | 67 |