Description

Extracting sequences that were unbinnned by vRhyme into a FASTA file

Input

name:type
description
pattern

meta

:map

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

membership

:file

TSV file containing information regarding which bins input sequences were placed information

*.{tsv}

meta2

:map

Groovy Map containing information related to the fasta e.g. [ id:‘test’ ]

fasta

:file

FASTA file containing contigs/scaffolds input into vRhyme

*.{fasta,fna,fa,fasta.gz,fna.gz,fa.gz}

Output

name:type
description
pattern

unbinned_sequences

meta

:map

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

${prefix}.fasta

:file

FASTA file containing unbinned sequences

*_unbinned_sequences.fasta

versions_vrhyme

${task.process}

:string

The name of the process

vrhyme

:string

The name of the tool

vRhyme --version 2>&1 | sed 's/^.*vRhyme v//; s/Using.*\$//'

:eval

The expression to obtain the version of the tool

Topics

name:type
description
pattern

versions

${task.process}

:string

The name of the process

vrhyme

:string

The name of the tool

vRhyme --version 2>&1 | sed 's/^.*vRhyme v//; s/Using.*\$//'

:eval

The expression to obtain the version of the tool

Tools

vrhyme
GPL v3 licenseGPL v3

vRhyme functions by utilizing coverage variance comparisons and supervised machine learning classification of sequence features to construct viral metagenome-assembled genomes (vMAGs).

github.com/AnantharamanLab/vRhyme 10.1093/nar/gkac341
maintainer
Github user CarsonJM
get in touch
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