KOunt: a reproducible KEGG orthologue abundance workflow

Jennifer Mattock; Marina Martínez-Álvaro; Matthew A Cleveland; Rainer Roehe; Mick Watson

doi:10.1093/bioinformatics/btad483

KOunt: a reproducible KEGG orthologue abundance workflow

Jennifer Mattock^*, Marina Martínez-Álvaro, Matthew A Cleveland, Rainer Roehe, Mick Watson

^*Corresponding author for this work

Beef & Sheep Research Centre

Research output: Contribution to journal › Data article › peer-review

2 Citations (Scopus)

22 Downloads (Pure)

Abstract

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

Original language	English
Article number	btad483
Journal	Bioinformatics (Oxford, England)
Volume	39
Issue number	8
Early online date	3 Aug 2023
DOIs	https://doi.org/10.1093/bioinformatics/btad483
Publication status	First published - 3 Aug 2023

Keywords

Workflow
Metagenome
Software
Databases, Factual

Access to Document

10.1093/bioinformatics/btad483

btad483Final published version, 1.14 MBLicence: CC BY

Cite this

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title = "KOunt: a reproducible KEGG orthologue abundance workflow",

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

keywords = "Workflow, Metagenome, Software, Databases, Factual",

author = "Jennifer Mattock and Marina Mart{\'i}nez-{\'A}lvaro and Cleveland, {Matthew A} and Rainer Roehe and Mick Watson",

year = "2023",

month = aug,

day = "3",

doi = "10.1093/bioinformatics/btad483",

language = "English",

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AU - Mattock, Jennifer

AU - Martínez-Álvaro, Marina

AU - Cleveland, Matthew A

AU - Roehe, Rainer

AU - Watson, Mick

PY - 2023/8/3

Y1 - 2023/8/3

N2 - Accurate gene prediction is essential for successful metagenome analysis. We present KOunt, a Snakemake pipeline, that precisely quantifies KEGG orthologue abundance.

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

KW - Workflow

KW - Metagenome

KW - Software

KW - Databases, Factual

UR - https://doi.org/10.6084/m9.figshare.21269715

UR - https://doi.org/10.6084/m9.figshare.22250152

UR - https://doi.org/10.6084/m9.figshare.23607834

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U2 - 10.1093/bioinformatics/btad483

DO - 10.1093/bioinformatics/btad483

M3 - Data article

C2 - 37535671

SN - 1367-4803

VL - 39

JO - Bioinformatics (Oxford, England)

JF - Bioinformatics (Oxford, England)

IS - 8

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ER -

KOunt: a reproducible KEGG orthologue abundance workflow

Abstract

Keywords

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Elucidating bovine host genomic links with rumen microbial genes to improve sustainably feed conversion efficiency using unique selection criteria

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KOunt: a reproducible KEGG orthologue abundance workflow

Abstract

Keywords

Access to Document

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Elucidating bovine host genomic links with rumen microbial genes to improve sustainably feed conversion efficiency using unique selection criteria

Cite this