Python library for immune repertoire analyses
Project description
Pyrepseq = scipy & seaborn for studying adaptive immunity: modular implementations of algorithms for fast analyses, and bespoke plotting functions for compelling visualizations.
## Documentation and examples
You can find API documentation on [readthedocs](https://pyrepseq.readthedocs.io/en/latest/?badge=latest)
There are jupyter notebooks illustrating some of the functionality in the ‘examples’ folder.
You can also find usage examples by looking at the code underlying our recent paper [Mayer Callan PNAS 2023](https://github.com/andim/paper_coincidences).
## Installation
The quickest way to install Pyrepseq is via pip:
pip install pyrepseq
Pyrepseq can also be installed from its [Github](https://github.com/andim/pyrepseq) source, by running python setup.py install in the main directory.
## Support and contributing
For bug reports and enhancement requests use the [Github issue tool](http://github.com/andim/pyrepseq/issues/new), or (even better!) open a [pull request](http://github.com/andim/pyrepseq/pulls) with relevant changes. If you have any questions don’t hesitate to contact us by email (andimscience@gmail.com) or Twitter ([@andimscience](http://twitter.com/andimscience)).
You can run the testsuite by running pytest in the top-level directory.
You are cordially invited to [contribute](https://github.com/andim/pyrepseq/blob/master/CONTRIBUTING.md) to the further development of pyrepseq!
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