WGDI: A user-friendly toolkit for evolutionary analyses of whole-genome duplications and ancestral karyotypes

BLAST+: architecture and applications

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IQ-TREE 2: New Models and Efficient Methods for Phylogenetic Inference in the Genomic Era

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MCScanX: a toolkit for detection and evolutionary analysis of gene synteny and collinearity

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MMseqs2 enables sensitive protein sequence searching for the analysis of massive data sets

Martin Steinegger, Johannes Söding · Nature Biotechnology · 2017 · 5.1K citations

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Sensitive protein alignments at tree-of-life scale using DIAMOND

Benjamin Buchfink, Klaus Reuter, Hajk‐Georg Drost · Nature Methods · 2021 · 5K citations · Full text

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