KOunt: a reproducible KEGG orthologue abundance workflow

Bioinformatics. 2023 Aug 1;39(8):btad483. doi: 10.1093/bioinformatics/btad483.

Abstract

Summary: Accurate gene prediction is essential for successful metagenome analysis. We present KOunt, a Snakemake pipeline, that precisely quantifies KEGG orthologue abundance.

Availability and implementation: KOunt is available on GitHub: https://github.com/WatsonLab/KOunt. The KOunt reference database is available on figshare: https://doi.org/10.6084/m9.figshare.21269715. Test data are available at https://doi.org/10.6084/m9.figshare.22250152 and version 1.2.0 of KOunt at https://doi.org/10.6084/m9.figshare.23607834.

Publication types

  • Research Support, Non-U.S. Gov't

MeSH terms

  • Databases, Factual
  • Metagenome*
  • Software*
  • Workflow

Associated data

  • figshare/10.6084/m9.figshare.21269715
  • figshare/10.6084/m9.figshare.22250152
  • figshare/10.6084/m9.figshare.23607834