Nextflow Registry | nf-core/paraphrase@0.0.0-0c7146d

nf-core/paraphrase @ 0.0.0-0c7146d

Parse and annotate paraphrase JSONs

long-read paraphrase annotate

Latest version: 0.0.0-0c7146d

Total downloads: 1

Source: nf-core/modules

Authors: @fellen31

Maintainers: @fellen31

Parse and annotate paraphrase JSONs

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

include { PARAPHRASE } from 'nf-core/paraphrase'

MIT License

Process

`Name`	`PARAPHRASE`

Input 3 channels

#1 tuple

`meta` map	Groovy Map containing sample information. e.g. `[ id:'sample1']`
`jsons` file	One or more JSON files from paraphase `*.json`
`samples` list	Sample names corresponding to the JSON files. Must be in the same order as the JSON files.

#2 tuple

`meta2` map	Groovy Map containing reference information.
`yaml` file	YAML file containing rules for annotation `*.yaml`

`tsv_output` boolean	Whether to output in TSV format instead of JSON. Default is false (JSON output).

Output 3 channels

#1 tsv tuple

`meta` map	Groovy Map containing sample information. e.g. `[ id:'sample1']`
`*.tsv` file	Annotated output in TSV format `*.tsv`

#2 json tuple

`meta` map	Groovy Map containing sample information. e.g. `[ id:'sample1']`
`*.json` file	Annotated output in JSON format `*.json`

#3 versions_paraphrase tuple

`${task.process}` string	The name of the process
`paraphrase` string	The name of the tool
`paraphrase --version \| sed 's/.* //'` eval	The expression to obtain the version of the tool

Tool	Description	Homepage
paraphrase	Paraphase JSON parser	https://github.com/Clinical-Genomics/paraphrase

Version	0.0.0-0c7146d
Commit ID	135d883a43b1a2324b4112cd270cf22e20835533
Release Date	08 Apr 2026 19:01:29 (UTC)
Download URL	https://registry-stage.nextflow.io/api/v1/modules/nf-core%2Fparaphrase/0.0.0-0c7146d/download
OCI Store URL	https://public.cr.stage-seqera.io/v2/nextflow/plugin-stage/modules/nf-core/paraphrase/blobs/sha256:dd03e1e92fa6bae594e30c3894d7a3ed5b811418fa995ba7fe9251a8d51be84f
Size	3.1 KB
Checksum	sha256:dd03e1e92fa6bae594e30c3894d7a3ed5b811418fa995ba7fe9251a8d51be84f
Downloads	1

Version	Date	Status	Downloads	Size	Diff
0.0.0-0c7146d	08 Apr 2026 19:01:29 (UTC)		1	3.1 KB	-