Ancestral recombination graph (ARG)
Project description
arg-needle
This repository contains arg-needle, which implements the ARG inference algorithms ARG-Needle and ASMC-clust.
Quickstart
Install the Python module from PyPI
The Python module can be installed with:
pip install arg-needle
This Python module is currently available on Linux and macOS.
Documentation
Please see the ARG-Needle manual for all usage instructions and documentation.
License
arg-needle is distributed under the GNU General Public License v3.0 (GPLv3). For any questions or comments on arg-needle, please contact Pier Palamara using <lastname>@stats.ox.ac.uk.
Acknowledgements
arg-needle is developed by Brian C. Zhang with support from Fergus Cooper, Árni Freyr Gunnarsson, and Pier Francesco Palamara.
Reference
If you use this software, please cite:
Biobank-scale inference of ancestral recombination graphs enables genealogy-based mixed model association of complex traits. B. C. Zhang, A. Biddanda, P. F. Palamara. bioRxiv. November 2021.
arg-needle Release Notes
v1.0.1 (2023-03-17)
Bug fix for running build_arg_simulation with ASMC-clust.
v1.0.0 (2023-03-10)
Initial PyPI release of arg-needle.
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