BioinformaticsBioinformaticsPeer-reviewed journal article
ksrates: positioning whole-genome duplications relative to speciation events in KS distributions
Abstract
SummaryWe present ksrates, a user-friendly command-line tool to position ancient whole-genome duplication (WGD) 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 implementationksrates 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. Contactsteven.maere@ugent.vib.be, rolf.lohaus@ugent.vib.be
- assay: whole-genome sequencing
- assay: whole-exome sequencing
- research focus: phylogenetics / evolution
- research focus: benchmarking
- research focus: software / tool
- approach: statistical model
- Citations
- 58
- FWCI
- 3.90
- Field percentile
- top 6%
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