Science Score: 67.0%
This score indicates how likely this project is to be science-related based on various indicators:
-
✓CITATION.cff file
Found CITATION.cff file -
✓codemeta.json file
Found codemeta.json file -
✓.zenodo.json file
Found .zenodo.json file -
✓DOI references
Found 3 DOI reference(s) in README -
✓Academic publication links
Links to: zenodo.org -
○Academic email domains
-
○Institutional organization owner
-
○JOSS paper metadata
-
○Scientific vocabulary similarity
Low similarity (16.3%) to scientific vocabulary
Keywords
Repository
eBCSgen - BioChemical Space Language support tool.
Basic Info
- Host: GitHub
- Owner: sybila
- License: mit
- Language: JavaScript
- Default Branch: master
- Homepage: https://ebcsgen.readthedocs.io/
- Size: 4.12 MB
Statistics
- Stars: 2
- Watchers: 4
- Forks: 4
- Open Issues: 25
- Releases: 11
Topics
Metadata Files
README.md
eBCSgen
eBSCgen is a tool for development and analysis of models written in Biochemical Space Language (BCSL).
The tool is deployed online as a part of BioDivine Galaxy toolset.
For more information about the tool, see Wiki.
To get started with the usage of Galaxy Platform and eBCSgen, we recommend this tutorial.
Installation
Conda
Install eBCSgen from Bioconda with:
```
install eBCSgen in a new virtual environment to avoid dependency clashes
conda create --name eBCSgen python=3.9 conda activate eBCSgen conda install --channel bioconda --channel conda-forge eBCSgen ```
Docker
You can also use prebuild docker image.
Galaxy
eBCSgen is also available as a series of Galaxy tools available in the main toolshed.
Developer Documentation
Setup
Create your development environment using the provided script via conda to install all required dependencies.
Contributing
We appreciate contributions - feel free to open an issue on our repository, create your own fork, work on the problem and post a PR. Please adhere to the versioning.
Testing
All functionality is tested with the pytest framework.
Owner
- Name: sybila
- Login: sybila
- Kind: organization
- Website: http://sybila.fi.muni.cz/
- Repositories: 70
- Profile: https://github.com/sybila
Citation (CITATION.cff)
cff-version: 1.2.0
message: "If you use this software, please cite it as below."
authors:
- family-names: "Troják"
given-names: "Matej"
orcid: "https://orcid.org/0000-0003-0841-2707"
- family-names: "Mertová"
given-names: "Lukrécia"
title: "eBCSgen"
version: 1.0.0
date-released: 2020-05-20
url: "https://github.com/sybila/eBCSgen"
preferred-citation:
type: proceedings
authors:
- family-names: "Troják"
given-names: "Matej"
orcid: "https://orcid.org/0000-0003-0841-2707"
- family-names: "Mertová"
given-names: "Lukrécia"
- family-names: "Šafránek"
given-names: "David"
orcid: "https://orcid.org/0000-0002-0713-2431"
- family-names: "Brim"
given-names: "Luboš"
orcid: "https://orcid.org/0000-0001-9393-7545"
title: "eBCSgen: A Software Tool for Biochemical Space Language"
collection-title: "International Conference on Computational Methods in Systems Biology"
publisher:
name: "Springer"
start: 356
end: 361
year: 2020
GitHub Events
Total
- Issues event: 3
- Delete event: 1
- Issue comment event: 2
- Push event: 3
- Pull request review event: 2
- Pull request review comment event: 1
- Pull request event: 3
- Create event: 2
Last Year
- Issues event: 3
- Delete event: 1
- Issue comment event: 2
- Push event: 3
- Pull request review event: 2
- Pull request review comment event: 1
- Pull request event: 3
- Create event: 2
Issues and Pull Requests
Last synced: 11 months ago
All Time
- Total issues: 112
- Total pull requests: 76
- Average time to close issues: 5 months
- Average time to close pull requests: 6 days
- Total issue authors: 2
- Total pull request authors: 3
- Average comments per issue: 0.51
- Average comments per pull request: 0.53
- Merged pull requests: 75
- Bot issues: 0
- Bot pull requests: 0
Past Year
- Issues: 1
- Pull requests: 1
- Average time to close issues: N/A
- Average time to close pull requests: N/A
- Issue authors: 1
- Pull request authors: 1
- Average comments per issue: 0.0
- Average comments per pull request: 2.0
- Merged pull requests: 0
- Bot issues: 0
- Bot pull requests: 0
Top Authors
Issue Authors
- xtrojak (62)
- mopichalova (5)
Pull Request Authors
- xtrojak (32)
- mopichalova (23)
- bmazinng (1)
Top Labels
Issue Labels
Pull Request Labels
Dependencies
- lark
- lark-parser
- numpy
- pandas
- pymodelchecking
- pyparsing
- pytest
- python >=3.9
- python-libsbml
- regex
- requests
- scipy
- sortedcontainers
- sympy
- lark *
- lark-parser *
- myst-parser *
- numpy *
- pandas *
- pip *
- pymodelchecking *
- pyparsing *
- pytest *
- python-libsbml *
- regex *
- requests *
- scipy *
- setuptools *
- sortedcontainers *
- sphinx *
- sphinx_rtd_theme *
- sympy *
- actions/checkout v2 composite
- conda-incubator/setup-miniconda v2 composite
- docker/login-action v1 composite
- pozetroninc/github-action-get-latest-release master composite
- actions/checkout v2 composite
- actions/setup-python v2 composite
- movesrwth/storm stable build