Description

Merging of CheckM and GUNC results in one summary table

Input

Name (Type)
Description
Pattern

meta (map)

Groovy Map containing sample information
e.g. [ id:‘test’, single_end

]

gunc_file (file)

Path of a gunc_scores.tsv file (mandatory)

*.{bam,cram,sam}

checkm_file (file)

Output TSV from CheckM qa (ideally with -o 2 extended format) (mandatory)

*.{bam,cram,sam}

Output

Name (Type)
Description
Pattern

meta (map)

Groovy Map containing sample information
e.g. [ id:‘test’, single_end

]

versions (file)

File containing software versions

versions.yml

tsv (file)

Merged checkm/gunc results in TSV format

*.tsv
included in
mag
author
Github user jfy133
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Tools

gunc
GNU General Public v3 or later (GPL v3+)

Python package for detection of chimerism and contamination in prokaryotic genomes.

grp-bork.embl-community.io/gunc https://github.com/grp-bork/gunc 10.1186/s13059-021-02393-0