recipe kofamscan

KofamKOALA assigns K numbers to the user's sequence data by HMMER/HMMSEARCH against KOfam

Homepage

https://www.genome.jp/tools/kofamkoala/

License

MIT License

Recipe

/kofamscan/meta.yaml

Links

doi: 10.1093/bioinformatics/btz859

KofamKOALA assigns K numbers to the user's sequence data by HMMER/HMMSEARCH against KOfam (a customized HMM database of KEGG Orthologs (KOs)). K number assignments with scores above the predefined thresholds for individual KOs are more reliable than other proposed assignments. Such high score assignments are highlighted with asterisks '*' in the output. The K number assignments facilitate the interpretation of the annotation results by linking the user's sequence data to the KEGG pathways and EC numbers.

package kofamscan

Versions

1.3.0-0,  1.2.0-0,  1.1.0-0,  1.0.0-0

Depends

• hmmer >=3.1

• parallel

• ruby >=2.4

Required By

Installation

With an activated Bioconda channel (see 2. Set up channels), install with:

conda install kofamscan

and update with:

conda update kofamscan

or use the docker container:

docker pull quay.io/biocontainers/kofamscan:<tag>

(see kofamscan/tags for valid values for <tag>)

Link to this page

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