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pysam: htslib interface for python — pysam 0.23.2 documentation
Find detailed documentation for pysam, a Python interface to htslib, with guides on handling genomic data formats like BAM, SAM, VCF, and more.
Explore pysam Python library docs for genomic data
This site is the official documentation hub for pysam, a popular Python interface for the htslib library. Here, you’ll find everything you need to get started with pysam, including installation instructions, API references, and step-by-step guides for working with common genomic data formats such as BAM, SAM, CRAM, VCF, and BCF files.
Whether you’re a researcher handling sequencing data or a developer integrating bioinformatics tools, this documentation offers clear examples and helpful explanations. You can learn how to use samtools and bcftools commands within Python, extend pysam’s capabilities, and troubleshoot common questions through the FAQ and developer’s guide sections.
The site is organized for easy navigation, with links to benchmarking, release notes, and a glossary to clarify technical terms. It’s designed to support both beginners and experienced users in making the most of pysam for their bioinformatics projects.
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