Description

Detection of Chimerism and Contamination in Prokaryotic Genomes

Input

name:type
description
pattern

meta:map

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

]

fasta_files:file

A list of FASTA files containing contig (bins)

*.fa

db:file

GUNC database file

*.dmnd

Output

name:type
description
pattern

maxcss_level_tsv

meta:map

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

]

*maxCSS_level.tsv:file

Output file with results for the maximum CSS level

*.tsv

all_levels_tsv

meta:map

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

]

*all_levels.tsv:file

Optional output file with results for each taxonomic level

*.tsv

versions

versions.yml:file

File containing software versions

versions.yml

Tools

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

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