https://github.com/bioinfo-pf-curie/geniac
Automatic Configuration GENerator and Installer for nextflow pipeline. This is a set of utilities to implement the best practises for the development of bioinformatics analysis pipelines with nextflow
Science Score: 26.0%
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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
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○Academic publication links
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○Scientific vocabulary similarity
Low similarity (4.1%) to scientific vocabulary
Last synced: 10 months ago
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JSON representation
Repository
Automatic Configuration GENerator and Installer for nextflow pipeline. This is a set of utilities to implement the best practises for the development of bioinformatics analysis pipelines with nextflow
Basic Info
- Host: GitHub
- Owner: bioinfo-pf-curie
- License: other
- Language: Python
- Default Branch: devel
- Size: 12.3 MB
Statistics
- Stars: 8
- Watchers: 1
- Forks: 4
- Open Issues: 0
- Releases: 30
Created over 5 years ago
· Last pushed about 1 year ago
Metadata Files
Readme
Changelog
License
README.md
Geniac
Geniac is an Automatic Configuration GENerator and Installer for nextflow pipelines.
Documentation
- The geniac documentation provides a set of best practises to implement Nextflow pipelines.
- The geniac source code provides the set of utilities.
- The geniac demo provides a toy pipeline to test and practise Geniac.
- The geniac demo DSL2 provides a toy pipeline to test and practise Geniac with Nextflow DSL2.
- The geniac template provides a pipeline template to start a new pipeline.
Acknowledgements
- Institut Curie
- Centre national de la recherche scientifique
- This project has received funding from the European Union’s Horizon 2020 research and innovation programme and the Canadian Institutes of Health Research under the grant agreement No 825835 in the framework on the European-Canadian Cancer Network
Citation
Owner
- Name: Institut Curie, Bioinformatics Core Facility
- Login: bioinfo-pf-curie
- Kind: organization
- Location: Paris, France
- Website: https://bioinfo-pf-curie.github.io/
- Repositories: 11
- Profile: https://github.com/bioinfo-pf-curie
bioinformatics platform of the Institut Curie
GitHub Events
Total
- Release event: 2
- Push event: 6
- Fork event: 1
- Create event: 2
Last Year
- Release event: 2
- Push event: 6
- Fork event: 1
- Create event: 2
Dependencies
docs/requirements.txt
pypi
- GitPython ==3.1.20
- cmake ==3.21.3
- colorlog ==6.5.0
- dotty-dict ==1.3.0
- importlib-metadata *
- sphinx ==3.5.4
- sphinx-rtd-theme ==1.0.0
- validators ==0.18.2
pyproject.toml
pypi
setup.py
pypi
docs/environment.yml
conda
- _libgcc_mutex 0.1
- _openmp_mutex 4.5
- alabaster 0.7.12
- babel 2.9.1
- brotlipy 0.7.0
- ca-certificates 2022.3.18
- certifi 2021.10.8
- cffi 1.15.0
- charset-normalizer 2.0.4
- colorama 0.4.4
- cryptography 36.0.0
- docutils 0.16
- idna 3.3
- imagesize 1.3.0
- jinja2 3.0.3
- ld_impl_linux-64 2.35.1
- libffi 3.3
- markupsafe 2.0.1
- ncurses 6.3
- openssl 1.1.1n
- packaging 21.3
- pip 21.2.4
- pycparser 2.21
- pygments 2.11.2
- pyopenssl 22.0.0
- pyparsing 3.0.4
- pysocks 1.7.1
- python 3.9.7
- pytz 2021.3
- readline 8.1.2
- requests 2.27.1
- setuptools 58.0.4
- snowballstemmer 2.2.0
- sphinx 3.5.4
- sphinxcontrib-applehelp 1.0.2
- sphinxcontrib-devhelp 1.0.2
- sphinxcontrib-htmlhelp 2.0.0
- sphinxcontrib-jsmath 1.0.1
- sphinxcontrib-qthelp 1.0.3
- sphinxcontrib-serializinghtml 1.1.5
- sqlite 3.38.0
- tk 8.6.11
- tzdata 2021e
- urllib3 1.26.8
- wheel 0.37.1
- xz 5.2.5
- zlib 1.2.11
environment.yml
conda
- apptainer 1.2.2
- certifi 2024.7.4
- git 2.46.0
- git-lfs 3.5.1
- make 4.4.1
- nextflow 24.04.4
- pip 24.2
- python 3.12.5
- wheel 0.44.0