Nextflow Registry | nf-core/gappa/examineassign@0.0.0-3fc6d40

nf-core/gappa/examineassign @ 0.0.0-3fc6d40

assigns taxonomy to query sequences in phylogenetic placement output

phylogeny phylogenetic placement classification taxonomy

Latest version: 0.0.0-6c4ed3a

Total downloads: 11

Source: nf-core/modules

Authors: @erikrikarddaniel

Maintainers: @erikrikarddaniel

assigns taxonomy to query sequences in phylogenetic placement output

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

include { GAPPA_EXAMINEASSIGN } from 'nf-core/gappa/examineassign'

MIT License

Process

`Name`	`GAPPA_EXAMINEASSIGN`

Input 1 channel

#1 tuple

`meta` map	Groovy Map containing sample information e.g. [ id:'test' ]
`jplace` file	jplace file output from phylogenetic placement, e.g. EPA-NG, gzipped or not `*.{jplace,jplace.gz}`
`taxonomy` file	taxonomy file

Output 7 channels

#1 krona tuple

`meta` map	Groovy Map containing sample information e.g. [ id:'test' ]
`*krona.profile` file	krona profile file `*krona.profile`

#2 sativa tuple

`meta` map	Groovy Map containing sample information e.g. [ id:'test' ]
`*sativa.tsv` file	sativa output file `*sativa.tsv`

#3 profile tuple

`meta` map	Groovy Map containing sample information e.g. [ id:'test' ]
`*profile.tsv` file	profile tsv file `*profile.tsv`

#4 versions

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

#5 per_query tuple

`meta` map	Groovy Map containing sample information e.g. [ id:'test' ]
`*per_query.tsv` file	per query taxonomy assignments in tsv format `*per_query.tsv`

#6 examineassign tuple

`meta` map	Groovy Map containing sample information e.g. [ id:'test' ]
`./.` directory	Execution directory

#7 labelled_tree tuple

`meta` map	Groovy Map containing sample information e.g. [ id:'test' ]
`*labelled_tree.newick` file	labelled tree in newick format `*labelled_tree.newick`

Tool	Description	Homepage
gappa	Genesis Applications for Phylogenetic Placement Analysis	https://github.com/lczech/gappa

Version	0.0.0-3fc6d40
Commit ID	6c4ed3a220310b905a1fc9d04f05be2e0837142b
Release Date	22 Apr 2026 15:12:48 (UTC)
Download URL	https://registry.nextflow.io/api/v1/modules/nf-core%2Fgappa%2Fexamineassign/0.0.0-3fc6d40/download
OCI Store URL	https://public.cr.seqera.io/v2/nextflow/plugin/modules/nf-core/gappa/examineassign/blobs/sha256:590e28b269e763f8ac041007915489682e606d67e9340903e0a41bc299f5543f
Size	2.8 KB
Checksum	sha256:590e28b269e763f8ac041007915489682e606d67e9340903e0a41bc299f5543f
Downloads	3

Version	Date	Status	Downloads	Size
0.0.0-6c4ed3a	23 Apr 2026 15:18:09 (UTC)		4	2.8 KB
0.0.0-3fc6d40	22 Apr 2026 15:12:48 (UTC)