test-datasets
Test data to be used for automated testing with the nf-core pipelines
Science Score: 54.0%
This score indicates how likely this project is to be science-related based on various indicators:
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✓CITATION.cff file
Found CITATION.cff file -
✓codemeta.json file
Found codemeta.json file -
✓.zenodo.json file
Found .zenodo.json file -
○DOI references
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○Academic publication links
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✓Committers with academic emails
2 of 17 committers (11.8%) from academic institutions -
○Institutional organization owner
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○JOSS paper metadata
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○Scientific vocabulary similarity
Low similarity (10.5%) to scientific vocabulary
Keywords
Keywords from Contributors
Repository
Test data to be used for automated testing with the nf-core pipelines
Basic Info
- Host: GitHub
- Owner: nf-core
- License: mit
- Default Branch: master
- Homepage: https://nf-co.re
- Size: 30.5 GB
Statistics
- Stars: 138
- Watchers: 160
- Forks: 434
- Open Issues: 51
- Releases: 1
Topics
Metadata Files
README.md
Test data to be used for automated testing with the nf-core pipelines
⚠️ Do not merge your test data to
master! Each pipeline has a dedicated branch (and a special one for modules)
Introduction
nf-core is a collection of high quality Nextflow pipelines. This repository contains various files for CI and unit testing of nf-core pipelines and infrastructure.
The principle for nf-core test data is as small as possible, as large as necessary. Please see the guidelines for more detailed information. Always ask for guidance on the nf-core slack before adding new test data.
Documentation
nf-core/test-datasets comes with documentation in the docs/ directory:
Downloading test data
Due the large number of large files in this repository for each pipeline, we highly recommend cloning only the branches you would use.
bash
git clone <url> --single-branch --branch <pipeline/modules/branch_name>
To subsequently clone other branches[^1]
bash
git remote set-branches --add origin [remote-branch]
git fetch
Support
For further information or help, don't hesitate to get in touch on our Slack organisation (a tool for instant messaging).
[^1]: From stackoverflow
Owner
- Name: nf-core
- Login: nf-core
- Kind: organization
- Email: core@nf-co.re
- Website: http://nf-co.re
- Twitter: nf_core
- Repositories: 84
- Profile: https://github.com/nf-core
A community effort to collect a curated set of analysis pipelines built using Nextflow.
Citation (CITATION.cff)
cff-version: 1.2.0
message: "If you use `nf-core tools` in your work, please cite the `nf-core` publication"
authors:
- family-names: Ewels
given-names: Philip
- family-names: Peltzer
given-names: Alexander
- family-names: Fillinger
given-names: Sven
- family-names: Patel
given-names: Harshil
- family-names: Alneberg
given-names: Johannes
- family-names: Wilm
given-names: Andreas
- family-names: Garcia
given-names: Maxime Ulysse
- family-names: Di Tommaso
given-names: Paolo
- family-names: Nahnsen
given-names: Sven
title: "The nf-core framework for community-curated bioinformatics pipelines."
version: 2.4.1
doi: 10.1038/s41587-020-0439-x
date-released: 2022-05-16
url: https://github.com/nf-core/tools
prefered-citation:
type: article
authors:
- family-names: Ewels
given-names: Philip
- family-names: Peltzer
given-names: Alexander
- family-names: Fillinger
given-names: Sven
- family-names: Patel
given-names: Harshil
- family-names: Alneberg
given-names: Johannes
- family-names: Wilm
given-names: Andreas
- family-names: Garcia
given-names: Maxime Ulysse
- family-names: Di Tommaso
given-names: Paolo
- family-names: Nahnsen
given-names: Sven
doi: 10.1038/s41587-020-0439-x
journal: nature biotechnology
start: 276
end: 278
title: "The nf-core framework for community-curated bioinformatics pipelines."
issue: 3
volume: 38
year: 2020
url: https://dx.doi.org/10.1038/s41587-020-0439-x
Committers
Last synced: over 2 years ago
Top Committers
| Name | Commits | |
|---|---|---|
| Solenne Correard | 5****d | 16 |
| reganhayward | r****d@g****m | 15 |
| drpatelh | d****l@g****m | 15 |
| sguizard | s****d@e****k | 14 |
| DSchreyer | d****r@w****e | 6 |
| MaxUlysse | m****a@g****m | 6 |
| Harshil Patel | d****h | 5 |
| James A. Fellows Yates | j****3@g****m | 4 |
| Edmund Miller | e****r@p****m | 3 |
| Phil Ewels | p****s@s****e | 3 |
| Praveen | p****6@g****m | 2 |
| JIANHONG OU | j****g | 2 |
| Maxime U. Garcia | m****a@s****e | 1 |
| chriswyatt1 | c****t@h****m | 1 |
| Daniel Schreyer | 2****S@s****k | 1 |
| Chuan Wang | c****g@s****e | 1 |
| Erik Danielsson | 5****n | 1 |
Committer Domains (Top 20 + Academic)
Issues and Pull Requests
Last synced: 6 months ago
All Time
- Total issues: 23
- Total pull requests: 485
- Average time to close issues: 30 days
- Average time to close pull requests: 19 days
- Total issue authors: 16
- Total pull request authors: 165
- Average comments per issue: 0.39
- Average comments per pull request: 0.47
- Merged pull requests: 384
- Bot issues: 0
- Bot pull requests: 0
Past Year
- Issues: 4
- Pull requests: 214
- Average time to close issues: 1 minute
- Average time to close pull requests: 3 days
- Issue authors: 4
- Pull request authors: 89
- Average comments per issue: 0.0
- Average comments per pull request: 0.28
- Merged pull requests: 155
- Bot issues: 0
- Bot pull requests: 0
Top Authors
Issue Authors
- SPPearce (10)
- luisas (3)
- khersameesh24 (2)
- DLBPointon (2)
- Emiller88 (2)
- Aratz (2)
- adamjtaylor (2)
- erikrikarddaniel (2)
- klkeys (2)
- LlaneroHiboreo (1)
- stephenturner (1)
- fmalmeida (1)
- maxibor (1)
- LouisLeNezet (1)
- daisymut (1)
Pull Request Authors
- sofstam (46)
- jfy133 (28)
- erikrikarddaniel (23)
- tanyasarkjain (23)
- LouisLeNezet (21)
- nschcolnicov (19)
- ramprasadn (18)
- luisas (18)
- pinin4fjords (16)
- FriederikeHanssen (16)
- atrigila (15)
- LilyAnderssonLee (15)
- kubranarci (14)
- vagkaratzas (13)
- TCLamnidis (12)