Nextflow Registry | nf-core/picrust2/pipeline@0.0.0-0c7146d

nf-core/picrust2/pipeline @ 0.0.0-0c7146d

Predict metagenome functional content from marker gene sequences and OTU/ASV abundance data

metagenomics functional prediction 16S microbiome

Latest version: 0.0.0-6c4ed3a

Total downloads: 6

Source: nf-core/modules

Authors: @dialvarezs

Maintainers: @dialvarezs

Predict metagenome functional content from marker gene sequences and OTU/ASV abundance data

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

include { PICRUST2_PIPELINE } from 'nf-core/picrust2/pipeline'

MIT License

Process

`Name`	`PICRUST2_PIPELINE`

Input 1 channel

#1 tuple

`meta` map	Groovy Map containing sample information e.g. `[ id:'sample1' ]`
`sequences` file	FASTA file containing study sequences (e.g., 16S rRNA sequences) `*.{fasta,fa,fna}`
`otu_table` file	OTU/ASV abundance table in BIOM or TSV format `*.{biom,tsv,txt}`

Output 5 channels

#1 trees tuple

`meta` map	Groovy Map containing sample information e.g. `[ id:'sample1' ]`
`${prefix}/*_reduced.tre` file	Phylogenetic trees with reduced marker gene sequences `*_reduced.tre`

#2 versions

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

#3 output_dir tuple

`meta` map	Groovy Map containing sample information e.g. `[ id:'sample1' ]`
`${prefix}/` directory	Complete output directory of PICRUSt2 pipeline

#4 pathway_abundances tuple

`meta` map	Groovy Map containing sample information e.g. `[ id:'sample1' ]`
`${prefix}_pathway_abundances.tsv.gz` file	Predicted pathway abundances (unstratified) `path_abun_unstrat.tsv.gz`

#5 function_abundances tuple

`meta` map	Groovy Map containing sample information e.g. `[ id:'sample1' ]`
`${prefix}_metagenome_*_abundances.tsv.gz` file	Predicted metagenome functional abundances (unstratified) `pred_metagenome_unstrat.tsv.gz`

Tool	Description	Homepage
picrust2	PICRUSt2: Phylogenetic Investigation of Communities by Reconstruction of Unobserved States	https://github.com/picrust/picrust2/wiki

Version	0.0.0-0c7146d
Commit ID	6c4ed3a220310b905a1fc9d04f05be2e0837142b
Release Date	08 Apr 2026 19:26:09 (UTC)
Download URL	https://registry.nextflow.io/api/v1/modules/nf-core%2Fpicrust2%2Fpipeline/0.0.0-0c7146d/download
OCI Store URL	https://public.cr.seqera.io/v2/nextflow/plugin/modules/nf-core/picrust2/pipeline/blobs/sha256:3b2532c83ccadeab3f505ecfafe895d7ca5cd3b85a040d11eb094dd61d96467d
Size	3.0 KB
Checksum	sha256:3b2532c83ccadeab3f505ecfafe895d7ca5cd3b85a040d11eb094dd61d96467d
Downloads	3

Version	Date	Status	Downloads	Size
0.0.0-6c4ed3a	23 Apr 2026 15:36:23 (UTC)		3	3.0 KB
0.0.0-0c7146d	08 Apr 2026 19:26:09 (UTC)		3	3.0 KB