KOunt: a reproducible KEGG orthologue abundance workflow Article Swipe
Jennifer Mattock
,
Marina Martínez-Álvaro
,
Matthew A. Cleveland
,
R. Roehe
,
Mick Watson
·
YOU?
·
· 2023
· Open Access
·
· DOI: https://doi.org/10.1093/bioinformatics/btad483
YOU?
·
· 2023
· Open Access
·
· DOI: https://doi.org/10.1093/bioinformatics/btad483
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.
Related Topics
Concepts
Metadata
- Type
- article
- Language
- en
- Landing Page
- https://doi.org/10.1093/bioinformatics/btad483
- https://academic.oup.com/bioinformatics/advance-article-pdf/doi/10.1093/bioinformatics/btad483/51032241/btad483.pdf
- OA Status
- gold
- Cited By
- 10
- References
- 18
- Related Works
- 10
- OpenAlex ID
- https://openalex.org/W4385564001
All OpenAlex metadata
Raw OpenAlex JSON
- OpenAlex ID
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https://openalex.org/W4385564001Canonical identifier for this work in OpenAlex
- DOI
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https://doi.org/10.1093/bioinformatics/btad483Digital Object Identifier
- Title
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KOunt: a reproducible KEGG orthologue abundance workflowWork title
- Type
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articleOpenAlex work type
- Language
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enPrimary language
- Publication year
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2023Year of publication
- Publication date
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2023-08-01Full publication date if available
- Authors
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Jennifer Mattock, Marina Martínez-Álvaro, Matthew A. Cleveland, R. Roehe, Mick WatsonList of authors in order
- Landing page
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https://doi.org/10.1093/bioinformatics/btad483Publisher landing page
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https://academic.oup.com/bioinformatics/advance-article-pdf/doi/10.1093/bioinformatics/btad483/51032241/btad483.pdfDirect link to full text PDF
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YesWhether a free full text is available
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goldOpen access status per OpenAlex
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https://academic.oup.com/bioinformatics/advance-article-pdf/doi/10.1093/bioinformatics/btad483/51032241/btad483.pdfDirect OA link when available
- Concepts
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Workflow, Metagenomics, Pipeline (software), KEGG, Computer science, Abundance (ecology), Biology, Ecology, Database, Gene, Programming language, Genetics, Gene expression, TranscriptomeTop concepts (fields/topics) attached by OpenAlex
- Cited by
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10Total citation count in OpenAlex
- Citations by year (recent)
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2025: 1, 2024: 8, 2023: 1Per-year citation counts (last 5 years)
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18Number of works referenced by this work
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-
10Other works algorithmically related by OpenAlex
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