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. 2022 Jan 3;38(2):530-532.
doi: 10.1093/bioinformatics/btab602.

ksrates: positioning whole-genome duplications relative to speciation events in KS distributions

Cecilia Sensalari  1   2 , Steven Maere  1   2 , Rolf Lohaus  1   2
Affiliations

ksrates: positioning whole-genome duplications relative to speciation events in KS distributions

Cecilia Sensalari et al. Bioinformatics. .

Abstract

Summary: We present ksrates, a user-friendly command-line tool to position ancient whole-genome duplication events with respect to speciation events in a phylogeny by comparing paralog and ortholog KS distributions derived from genomic or transcriptomic sequences, while adjusting for substitution rate differences among the lineages involved.

Availability and implementation: ksrates is implemented in Python 3 and as a Nextflow pipeline. The source code, Singularity and Docker containers, documentation and tutorial are available via https://github.com/VIB-PSB/ksrates.

Supplementary information: Supplementary data are available at Bioinformatics online.

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