Home
Pipelines
Resources
Components
Modules
Subworkflows
Configs
Shared configs
Plugins & Actions
nft-utils
setup-nextflow
setup-nf-test
Docs
Community
What's happening
Advisories
Blog
Events
Bytesize Talks
Hackathons
Training
Talks
Weekly Helpdesks
Programs and groups
Special interest groups
In-progress RFCs
Mentorships
Contributors
Shop
new
Connect game 👾
About
About nf-core
Stickers
Governance
Marketing
Code of conduct
Publications
Statistics
Join nf-core
Select theme
Light
Dark
System
Select theme
Light
Dark
System
Join nf-core
Join
nf-core
Docs
nf-core/
tools
Overview of sections about nf-core/tools
Nf-core-tools
API
nf-core/tools API reference
CLI
Installation
Pipelines
create
list
launch
create params file
download
licences
rocrate
lint
schema
bump version
sync
create logo
Modules
list
info
install
update
remove
patch
create
lint
test
bump versions
Subworkflows
list
info
install
update
remove
create
lint
test
Test datasets
list
list branches
search
TUI
Get started
What is nf-core?
Environment setup
Overview
Nextflow
Software dependencies
nf-core tools
VS Code
Dev Containers
Run your first pipeline
Running
Overview
Advanced topics
Google Colab
Managing work directory growth
Configuration
Overview
System requirements
Reference genomes
Running pipelines offline
Developing
Overview
Components
Automated methods
Create components
Cross organisational components
ext arguments
Meta maps
Setting custom remotes
Containers
ARM64 on Bioconda
Seqera Containers
Documentation
Code formatting
Harshil alignment
Markdown
Style guide
Topic types
Institutional profiles
Overview
Configuration
Documentation
File structure
nf-core/configs outside nf-core
Preparing to write
Testing
Migration guides
Migrating to topic channels
Pipelines
Adding modules
External use
Renaming branches
Template files
Template syncs
Overview
Fixing a broken TEMPLATE branch
Manually syncing your pipeline
Merging automated PRs
Setting up a pipeline sync retrospectively
Testing
Overview
Advanced
Assertions
Contributing
Overview
Components
Contribution types
Contributor's list
Deprecating modules
Documentation
Existing pipelines
New pipelines
Project proposals
Reviewing pull requests
nf-core bot
Review checklists
Components
nf-core/tools
Pipelines
Reviewing pipeline releases
Specifications
Overview
Components
Overview
Modules
General
Naming conventions
Input/output Options
Documentation
Parameters
Resource requirements
Software
Testing
Misc
Subworkflows
General
Naming conventions
Input output options
Subworkflow parameters
Documentation
Testing
Misc
Pipelines
Overview
Recommendations
Publication credit
Testing
Bioconda
Build with community
Cloud compatible
Custom containers
DOIs
File formats
Requirements
Acknowledgements
CI testing
Community owned
Docker
Docs
Git branches
Identity branding
Keywords
Linting
Minimum inputs
MIT license
Nextflow
Parameters
RO Crate
Semantic versioning
Single command
Use the template
Workflow name
Workflow size
Workflow specificity
Reviews
Overview
Request reviewers
Rapid merge
Review scope
Commit strategy
Test data
Overview
General
Modules
Community
Advisories
Brand
Overview
Colours
Fonts
Logos
Presentations
Workflow schematics
Governance
Core team tasks
Maintainers tasks
Regulatory
Overview
Checklist
Terminology
nf-core/tools
API
CLI
Installation
Pipelines
create
list
launch
create params file
download
licences
rocrate
lint
schema
bump version
sync
create logo
Modules
list
info
install
update
remove
patch
create
lint
test
bump versions
Subworkflows
list
info
install
update
remove
create
lint
test
Test datasets
list
list branches
search
TUI