Nextflow Registry | nf-core/maxbin2@0.0.0-6c4ed3a

nf-core/maxbin2 @ 0.0.0-6c4ed3a

MaxBin is a software that is capable of clustering metagenomic contigs

Latest version: 0.0.0-6c4ed3a

Total downloads: 10

Source: nf-core/modules

Authors: @jfy133

Maintainers: @jfy133

MaxBin is a software that is capable of clustering metagenomic contigs

Add the following snippet to your workflow script to include this module.

include { MAXBIN2 } from 'nf-core/maxbin2'

MIT License

Process

`Name`	`MAXBIN2`

Input 1 channel

#1 tuple

`meta` map	Groovy Map containing sample information e.g. [ id:'test', single_end:false ]
`contigs` file	Multi FASTA file containing assembled contigs of a given sample `*.fasta`
`reads` file	Reads used to assemble contigs in FASTA or FASTQ format. Do not supply at the same time as abundance files. `*.fasta`
`abund` list	One or more contig abundance files, i.e. average depth of reads against each contig. See MaxBin2 README for details. Do not supply at the same time as read files.

Output 10 channels

#1 log tuple

`meta` map	Groovy Map containing sample information e.g. [ id:'test', single_end:false ]
`*.log.gz` file	Log file recording the core steps of MaxBin algorithm `*.log.gz`

#2 summary tuple

`meta` map	Groovy Map containing sample information e.g. [ id:'test', single_end:false ]
`*.summary` file	Summary file describing which contigs are being classified into which bin `*.summary`

#3 versions

`versions.yml` file	File containing software versions `versions.yml`

#4 abundance tuple

`meta` map	Groovy Map containing sample information e.g. [ id:'test', single_end:false ]
`*.abundance` file	Abundance of each bin if multiple abundance files were supplied which bin `*.abundance`

#5 marker_bins tuple

`meta` map	Groovy Map containing sample information e.g. [ id:'test', single_end:false ]
`*_bin.tar.gz` file	Marker bins `*_bin.tar.gz`

#6 marker_genes tuple

`meta` map	Groovy Map containing sample information e.g. [ id:'test', single_end:false ]
`*_gene.tar.gz` file	Marker genes `*_gene.tar.gz`

#7 binned_fastas tuple

`meta` map	Groovy Map containing sample information e.g. [ id:'test', single_end:false ]
`*.fasta.gz` file	Binned contigs, one per bin designated with numeric IDs `*.fasta.gz`

#8 marker_counts tuple

`meta` map	Groovy Map containing sample information e.g. [ id:'test', single_end:false ]
`*.marker.gz` file	Marker counts `*.marker.gz`

#9 tooshort_fasta tuple

`meta` map	Groovy Map containing sample information e.g. [ id:'test', single_end:false ]
`*.tooshort.gz` file	All sequences that do not meet the minimum length threshold. `*.tooshort.gz`

#10 unbinned_fasta tuple

`meta` map	Groovy Map containing sample information e.g. [ id:'test', single_end:false ]
`*.noclass.gz` file	All sequences that pass the minimum length threshold but are not classified successfully. `*.noclass.gz`

Tool	Description	Homepage
maxbin2	MaxBin is software for binning assembled metagenomic sequences based on an Expectation-Maximization algorithm.