CLI

Installation

Install nf-core/tools
TUI

Explore commands graphically

Pipelines

create

Scaffold new pipelines

list

List pipelines

launch

Launch pipelines via TUI or GUI

create params file

Create parameter files

download

Download pipelines and dependencies

licences

Print software licenses

rocrate

Create RO-Crates

lint

Lint pipelines

schema

Build schema files

bump version

Bump pipeline versions

sync

Sync pipelines with template

create logo

Create pipeline logos

Modules

list

List modules

info

View module information

install

Install modules

update

Update modules

remove

Remove modules

patch

Create module patches

create

Create modules

lint

Lint modules

test

Create module tests

bump versions

Bump module versions

Subworkflows

list

List subworkflows

info

View subworkflow information

install

Install subworkflows

update

Update subworkflows

remove

Remove subworkflows

create

Create subworkflows

lint

Lint subworkflows

test

Create subworkflow tests

Test datasets

list

List test dataset files

list branches

List test dataset branches

search

Search test dataset files

API

API

Browse API reference