https://github.com/carpentries-incubator/workflows-nextflow

Workflow management with Nextflow and nf-core
https://github.com/carpentries-incubator/workflows-nextflow

bulk-rna-seq carpentries-incubator english lesson nextflow nf-core pre-alpha rna-seq-analysis workflow-management

Last synced: 8 months ago
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Workflow management with Nextflow and nf-core

• Host: GitHub
• URL: https://github.com/carpentries-incubator/workflows-nextflow
• Owner: carpentries-incubator
• License: other
• Created: 2021-02-01T10:46:46.000Z (over 4 years ago)
• Default Branch: main
• Last Pushed: 2025-01-21T00:57:21.000Z (9 months ago)
• Last Synced: 2025-01-21T01:31:27.718Z (9 months ago)
• Topics: bulk-rna-seq, carpentries-incubator, english, lesson, nextflow, nf-core, pre-alpha, rna-seq-analysis, workflow-management
• Language: Nextflow
• Homepage: https://carpentries-incubator.github.io/workflows-nextflow/
• Size: 26.7 MB
• Stars: 25
• Watchers: 6
• Forks: 35
• Open Issues: 29
• Metadata Files:
  • Readme: README.md
  • Contributing: CONTRIBUTING.md
  • License: LICENSE.md
  • Code of conduct: CODE_OF_CONDUCT.md
  • Citation: CITATION
  • Authors: AUTHORS

Awesome Lists containing this project

README

          
This lesson is an introduction to the workflow manager Nextflow, and nf-core, a community effort to collect a curated set of analysis pipelines built using Nextflow.

[Nextflow](https://www.nextflow.io/) enables scalable and reproducible scientific workflows using software containers such as Docker and Singularity. It allows the adaptation of pipelines written in the most common scripting languages such as R and Python. Nextflow is a Domain Specific Language (DSL) that simplifies the implementation and the deployment of complex parallel and reactive workflows on clouds and clusters.

This lesson also introduces [nf-core](https://nf-co.re/): a framework that provides a community-driven, peer reviewed platform for the development of best practice analysis pipelines written in Nextflow.

This lesson motivates the use of Nextflow and nf-core as a development tool for building and sharing computational pipelines that facilitate reproducible (data) science workflows.

## Contributing

We welcome all contributions to improve the lesson! Maintainers will do their best to help you if you have any

questions, concerns, or experience any difficulties along the way.

We'd like to ask you to familiarize yourself with our [Contribution Guide](CONTRIBUTING.md) and have a look at

the [more detailed guidelines][lesson-example] on proper formatting, ways to render the lesson locally, and even

how to write new episodes.

Please see the current list of [issues][https://github.com/carpentries-incubator/workflows-nextflow/issues] for ideas for contributing to this

repository. For making your contribution, we use the GitHub flow, which is

nicely explained in the chapter [Contributing to a Project](https://git-scm.com/book/en/v2/GitHub-Contributing-to-a-Project) in Pro Git

by Scott Chacon.

Look for the tag ![good\_first\_issue](https://img.shields.io/badge/-good%20first%20issue-gold.svg). This indicates that the maintainers will welcome a pull request fixing this issue.

## Maintainer(s)

Current maintainers of this lesson are

- Graeme R. Grimes

- Mahesh Binzer-Panchal

## Authors

A list of contributors to the lesson can be found in [AUTHORS](AUTHORS)

## Citation

To cite this lesson, please consult with [CITATION](CITATION)

## Useful Incubator links

- [Carpentries Development Handbook](https://cdh.carpentries.org)

- [community-lessons](https://carpentries.org/community-lessons)

- [lesson-example](https://carpentries.github.io/lesson-example)