Metadata-Version: 2.4
Name: gain-core
Version: 2026.4.7
Summary: GAIn: Genomic Annotation Infrastructure
Project-URL: Homepage, https://github.com/IossifovLab/gain
Author-email: Lubomir Chorbadjiev <lubomir.chorbadjiev@gmail.com>
License: MIT
Classifier: Development Status :: 4 - Beta
Classifier: License :: OSI Approved :: MIT License
Classifier: Operating System :: OS Independent
Classifier: Programming Language :: Python :: 3.12
Requires-Python: >=3.12
Requires-Dist: apsw>=3.52
Requires-Dist: cerberus>=1.3
Requires-Dist: dask-jobqueue>=0.9
Requires-Dist: dask>=2026.1
Requires-Dist: distributed>=2026.1
Requires-Dist: docker>=7.1
Requires-Dist: filelock>=3.19
Requires-Dist: fsspec>=2026.2
Requires-Dist: intervaltree
Requires-Dist: jinja2>=3.1
Requires-Dist: lark>=1.2
Requires-Dist: markdown2>=2.4
Requires-Dist: matplotlib>=3.8
Requires-Dist: networkx>=3.6
Requires-Dist: numpy>=2.2
Requires-Dist: pandas>=2.2
Requires-Dist: psutil
Requires-Dist: pybigwig>=0.3
Requires-Dist: pydantic>=2.8
Requires-Dist: pyliftover>=0.4
Requires-Dist: pysam>=0.23
Requires-Dist: python-box>=7.1
Requires-Dist: pyyaml>=6
Requires-Dist: s3fs>=2026.2
Description-Content-Type: text/markdown

## GAIn: Genomic Annotation Infrastructure

Annotation is a core step in genomic analysis: sequencing gives you a list of observed variants, and annotation adds the biological and clinical context needed to interpret them. GAIn is an infrastructure for running annotation in a consistent, reproducible way—by combining curated resources (genomes, gene models, scores, gene sets, and plugins) with a user-defined annotation pipeline that specifies what to compute and what to emit. This documentation walks through how to use GAIn end to end: getting started on the web and the CLI, discovering and building Genomic Resource Repositories (GRRs), configuring resources, writing and running annotation pipelines, and using the web and Python interfaces.

Information on how to use GPF could be found in the
[GAIn documentation](https://iossifovlab.com/gaindocs/)
