Groovy Map containing sample information
e.g. [ id:‘test’]
reads:file
Preprocessed FASTQ file containing sample reads
*.{fastq}
meta2:map
Groovy Map containing fasta information
e.g. [ id:‘test’]
fasta:file
Contigs/scaffolds identified as viral
*.{fna,fasta,fa,fasta.gz,fa.gz}
Output
name:type
description
pattern
bins
meta:map
Groovy Map containing sample information
e.g. [ id:‘test’ ]
vRhyme_best_bins_fasta/:directory
Directory containing bin FASTA files
**/vRhyme_best_bins_fasta/
membership
meta:map
Groovy Map containing sample information
e.g. [ id:‘test’]
**/vRhyme_best_bins.*.membership.tsv:file
TSV file describing the contig/scaffold membership of each bin
vRhyme_best_bins.*.membership.tsv
summary
meta:map
Groovy Map containing sample information
e.g. [ id:‘test’, single_end:false ]
**/vRhyme_best_bins.*.summary.tsv:file
TSV file summarizing the attributes of each bin
vRhyme_best_bins.*.summary.tsv
versions
versions.yml:file
File containing software versions
versions.yml
Tools
vrhyme
GPL v3 GPL v3 license
vRhyme functions by utilizing coverage variance comparisons and supervised machine learning classification of sequence features to construct viral metagenome-assembled genomes (vMAGs).
