Highly scalable inference of ancestral recombination graphs (ARGs)
Project description
Threads
This software implements the Threads algorithm, described in
Á. F. Gunnarsson, J. Zhu, B. C. Zhang, Z. Tsangalidou, A. Allmont, P. Palamara. A scalable approach for genome-wide inference of ancestral recombination graphs. bioRxiv, 2024.
The user manual for threads can be found here.
Installation
pip install threads_arg
threads Release Notes
[0.2.0] - 2025-04-29
Added
- Optimised imputation (#28)
- Variant mapping (#38)
- Upgrade to numpy 2.0 (#39)
- Consistent SHAPEIT format for regions (#42)
- Ability to write impute output directly to stdout (#42)
- Allele age estimation and data consistency (#51)
Fixed
- Fix os.sched_getaffinity macOS error (#49)
[0.1.0] - 2024-07-04
Added
- Initial version of threads
Release history Release notifications | RSS feed
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