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

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

3 Citations (Scopus)

46 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",

volume = "39",

journal = "Bioinformatics (Oxford, England)",

issn = "1367-4803",

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T1 - KOunt: a reproducible KEGG orthologue abundance workflow

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

UR - https://www.scopus.com/pages/publications/85167852125

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

M1 - btad483

ER -

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

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KOunt: a reproducible KEGG orthologue abundance workflow

Abstract

Keywords

Access to Document

Other files and links

Fingerprint

Projects

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

Cite this