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HAlign 3: Fast Multiple Alignment of Ultra-Large Numbers of Similar DNA/RNA Sequences. 2022
Furong Tang, and
Jiannan Chao, and
Yanming Wei, and
Fenglong Yang, and
Yixiao Zhai, and
Lei Xu, and
Quan Zou
Yangtze Delta Region Institute (Quzhou), University of Electronic Science and Technology of China, Quzhou, China.
HAlign is a cross-platform program that performs multiple sequence alignments based on the center star strategy. Here we present two major updates of HAlign 3, which helped improve the time efficiency and the alignment quality, and made HAlign 3 a specialized program to process ultra-large numbers of similar DNA/RNA sequences, such as closely related viral or prokaryotic genomes. HAlign 3 can be easily installed via the Anaconda and Java release package on macOS, Linux, Windows subsystem for Linux, and Windows systems, and the source code is available on GitHub (https://github.com/malabz/HAlign-3).
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