Paper: Sep 13,2024
q-bio.GN
ID:2409.08569
wgatools: an ultrafast toolkit for manipulating whole genome alignments
Summary: With the rapid development of long-read sequencing technologies, the
era of individual complete genomes is approaching. We have developed wgatools,
a cross-platform, ultrafast toolkit that supports a range of whole genome
alignment (WGA) formats, offering practical tools for conversion, processing,
statistical evaluation, and visualization of alignments, thereby facilitating
population-level genome analysis and advancing functional and evolutionary
genomics. Availability and Implementation: wgatools supports diverse formats
and can process, filter, and statistically evaluate alignments, perform
alignment-based variant calling, and visualize alignments both locally and
genome-wide. Built with Rust for efficiency and safe memory usage, it ensures
fast performance and can handle large datasets consisting of hundreds of
genomes. wgatools is published as free software under the MIT open-source
license, and its source code is freely available at
https://github.com/wjwei-handsome/wgatools. Contact: weiwenjie@westlake.edu.cn
(W.W.) or liuhaijun@yzwlab.cn (H.-J.L.).
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Paper Author: Wenjie Wei,Songtao Gui,Jian Yang,Erik Garrison,Jianbing Yan,Hai-Jun Liu
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