Metagenome binning of contigs
meta{:bash}
:map
Groovy Map containing sample information e.g. [ id:‘test’, single_end:false ]
fasta{:bash}
:file
Fasta file of the assembled contigs
*.{fa,fas,fasta,fna,fa.gz,fas.gz,fasta.gz,fna.gz}
depth{:bash}
Optional text file listing the coverage per contig pre-generated by metabat2_jgisummarizebamcontigdepths
*.txt
tooshort{:bash}
*.tooShort.fa.gz{:bash}
Contigs that did not pass length filtering
*.tooShort.fa.gz
lowdepth{:bash}
*.lowDepth.fa.gz{:bash}
Contigs that did not have sufficient depth for binning
*.lowDepth.fa.gz
unbinned{:bash}
*.unbinned.fa.gz{:bash}
Contigs that pass length and depth filtering but could not be binned
*.unbinned.fa.gz
membership{:bash}
*.tsv.gz{:bash}
cluster memberships as a matrix format.
*.tsv.gz
*[!lowDepth|tooShort|unbinned].fa.gz{:bash}
Bins created from assembled contigs in fasta file
*.fa.gz
versions_metabat2{:bash}
${task.process}{:bash}
:string
The name of the process
metabat2{:bash}
The name of the tool
metabat2 --help 2>&1 | sed -n "2s/.*:\([0-9]*\.[0-9]*\).*/\1/p"{:bash}
:eval
The expression to obtain the version of the tool
versions{:bash}
Metagenome binning
