Skip to content

sanger-tol/nf-core-tools

Folders and files

NameName
Last commit message
Last commit date

Latest commit

76d399d · Oct 24, 2024
Feb 25, 2024
Oct 24, 2024
Oct 19, 2024
Oct 24, 2024
Oct 24, 2024
Jul 17, 2024
Dec 5, 2023
Oct 14, 2024
Oct 23, 2024
Aug 14, 2024
Mar 18, 2022
Oct 24, 2024
Oct 19, 2024
Jul 25, 2023
Oct 15, 2024
Oct 21, 2024
Feb 13, 2018
Aug 28, 2024
Oct 8, 2024
Jan 8, 2024
Jul 26, 2024
Jul 17, 2024
Oct 7, 2024
Oct 23, 2024
Oct 14, 2024

Repository files navigation

nf-core/tools

Python tests codecov code style: prettier code style: Ruff

install with Bioconda install with PyPI Get help on Slack

A python package with helper tools for the nf-core community.

The nf-core tools package is written in Python and can be imported and used within other packages. For documentation of the internal Python functions, please refer to the Tools Python API docs.

Installation

For full installation instructions, please see the nf-core documentation. Below is a quick-start for those who know what they're doing:

Bioconda

Install from Bioconda:

conda install nf-core

Alternatively, you can create a new environment with both nf-core/tools and nextflow:

conda create --name nf-core python=3.12 nf-core nextflow
conda activate nf-core

Python Package Index

Install from PyPI:

pip install nf-core

Development version

pip install --upgrade --force-reinstall git+https://github.com/nf-core/tools.git@dev

If editing, fork and clone the repo, then install as follows:

pip install --upgrade -r requirements-dev.txt -e .

Contributions and Support

If you would like to contribute to this package, please see the contributing guidelines.

For further information or help, don't hesitate to get in touch on the Slack #tools channel (you can join with this invite).

Citation

If you use nf-core tools in your work, please cite the nf-core publication as follows:

The nf-core framework for community-curated bioinformatics pipelines.

Philip Ewels, Alexander Peltzer, Sven Fillinger, Harshil Patel, Johannes Alneberg, Andreas Wilm, Maxime Ulysse Garcia, Paolo Di Tommaso & Sven Nahnsen.

Nat Biotechnol. 2020 Feb 13. doi: 10.1038/s41587-020-0439-x.

About

Python package with helper tools for the nf-core community.

Topics

Resources

License

Code of conduct

Citation

Stars

Watchers

Forks

Releases

No releases published

Packages

No packages published

Languages

  • Python 93.4%
  • Nextflow 5.9%
  • Other 0.7%