https://github.com/janeliascicomp/nextflow-modules
Nextflow modules for use with nf-core tooling
https://github.com/janeliascicomp/nextflow-modules
Last synced: 3 months ago
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Nextflow modules for use with nf-core tooling
- Host: GitHub
- URL: https://github.com/janeliascicomp/nextflow-modules
- Owner: JaneliaSciComp
- License: bsd-3-clause
- Created: 2023-10-02T16:32:01.000Z (over 2 years ago)
- Default Branch: main
- Last Pushed: 2026-01-23T16:42:40.000Z (5 months ago)
- Last Synced: 2026-01-23T16:47:03.424Z (5 months ago)
- Language: Nextflow
- Size: 289 KB
- Stars: 1
- Watchers: 7
- Forks: 0
- Open Issues: 0
-
Metadata Files:
- Readme: README.md
- License: LICENSE
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README
# Nextflow modules
This repository holds reusable modules, subworkflows that are used in Janelia Nextflow pipelines.
The repository is formatted to be compatible with [nf-core tooling](https://nf-co.re/), in particular the [module system](https://github.com/nf-core/modules/tree/master).
## Prerequisites
You must [install nf-core tools](https://nf-co.re/tools) in your environment before you can install modules from this repository.
## List modules
```bash
nf-core modules -g JaneliaSciComp/nextflow-modules list remote
```
## Installing a module
To install a module into a pipeline, use the `modules install` command, e.g.:
```bash
nf-core modules -g JaneliaSciComp/nextflow-modules install spark/prepare
```
## Installing a subworkflow
```bash
nf-core subworkflows -g JaneliaSciComp/nextflow-modules install spark_start
```
This will install the subworkflow and all of its dependencies including the **spark_cluster** subworkflow and all necessary modules.