nf-modules
Reusable modules and subworkflows for CCBR nextflow pipelines
Science Score: 67.0%
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✓CITATION.cff file
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✓codemeta.json file
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✓.zenodo.json file
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✓DOI references
Found 1 DOI reference(s) in README -
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○Scientific vocabulary similarity
Low similarity (9.9%) to scientific vocabulary
Repository
Reusable modules and subworkflows for CCBR nextflow pipelines
Basic Info
- Host: GitHub
- Owner: CCBR
- License: mit
- Language: Nextflow
- Default Branch: main
- Homepage: https://ccbr.github.io/nf-modules/
- Size: 110 MB
Statistics
- Stars: 0
- Watchers: 4
- Forks: 0
- Open Issues: 13
- Releases: 1
Metadata Files
README.md
nf-modules
Reusable modules and subworkflows for Nextflow pipelines
Usage
To re-use a module in your nextflow pipeline, first install nf-core tools, then run
sh
nf-core modules \
--git-remote https://github.com/CCBR/nf-modules \
install [module]
replacing [module] with the name of the module you wish to install.
To update your local version of a module, run
sh
nf-core modules \
--git-remote https://github.com/CCBR/nf-modules \
update [module]
Use the subworkflows command in place of the modules command to install or update subworkflows.
sh
nf-core subworkflows \
--git-remote https://github.com/CCBR/nf-modules \
update [subworkflow]
View listings of available modules and subworkflows on the documentation website.
Help & Contributing
Come across a bug? Open an issue and include a minimal reproducible example.
Have a question? Ask it in discussions.
Want to contribute to this project? Check out the contributing guidelines.
References
Many of the modules and subworkflows in this project reuse and adapt code from nf-core/modules.
In those cases, credit is noted in the meta.yml file of the module/subworkflow and also listed here:
- bedtools adapts the nf-core bedtools module
- bwa adapts the nf-core bwa module
- cat adapts the nf-core cat module
- cutadapt adapts the nf-core cutadapt module
- khmer adapts the nf-core khmer module
- picard/samtofastq adapts the nf-core gatk4 samtofastq module
- samtools/sort adapts the nf-core samtools sort module
Owner
- Name: CCR Collaborative Bioinformatics Resource
- Login: CCBR
- Kind: organization
- Email: nciccbr@mail.nih.gov
- Location: United States of America
- Website: https://bioinformatics.ccr.cancer.gov/ccbr/
- Repositories: 92
- Profile: https://github.com/CCBR
CCR Collaborative Bioinformatics Resource, Center for Cancer Research (NCI), National Institutes of Health
Citation (CITATION.cff)
cff-version: 1.2.0
message: "Please cite nf-modules as below."
authors:
- family-names: Sovacool
given-names: Kelly
orcid: https://orcid.org/0000-0003-3283-829X
affiliation: Advanced Biomedical Computational Science, Frederick National Laboratory for Cancer Research, Frederick, MD 21702, USA
- family-names: Koparde
given-names: Vishal
orcid: https://orcid.org/0000-0001-8978-8495
affiliation: Advanced Biomedical Computational Science, Frederick National Laboratory for Cancer Research, Frederick, MD 21702, USA
title: "nf-modules: Reusable modules and subworkflows for CCBR Nextflow pipelines"
url: https://CCBR.github.io/nf-modules/
repository-code: https://github.com/CCBR/nf-modules
license: MIT
type: software
identifiers:
- description: "Archived snapshots of all versions"
type: doi
value: "10.5281/zenodo.10223357"
version: v0.1.0
date-released: 2023-11-29
GitHub Events
Total
- Issues event: 3
- Delete event: 2
- Push event: 9
- Pull request event: 5
- Create event: 4
Last Year
- Issues event: 3
- Delete event: 2
- Push event: 9
- Pull request event: 5
- Create event: 4
Issues and Pull Requests
Last synced: 6 months ago
All Time
- Total issues: 1
- Total pull requests: 3
- Average time to close issues: 8 minutes
- Average time to close pull requests: 4 minutes
- Total issue authors: 1
- Total pull request authors: 1
- Average comments per issue: 0.0
- Average comments per pull request: 0.0
- Merged pull requests: 1
- Bot issues: 0
- Bot pull requests: 0
Past Year
- Issues: 1
- Pull requests: 3
- Average time to close issues: 8 minutes
- Average time to close pull requests: 4 minutes
- Issue authors: 1
- Pull request authors: 1
- Average comments per issue: 0.0
- Average comments per pull request: 0.0
- Merged pull requests: 1
- Bot issues: 0
- Bot pull requests: 0
Top Authors
Issue Authors
- kelly-sovacool (4)
- kopardev (2)
Pull Request Authors
- kelly-sovacool (5)
- kopardev (1)