Science Score: 46.0%
This score indicates how likely this project is to be science-related based on various indicators:
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○CITATION.cff file
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✓codemeta.json file
Found codemeta.json file -
✓.zenodo.json file
Found .zenodo.json file -
○DOI references
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✓Academic publication links
Links to: zenodo.org -
✓Committers with academic emails
2 of 6 committers (33.3%) from academic institutions -
○Institutional organization owner
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○JOSS paper metadata
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○Scientific vocabulary similarity
Low similarity (14.2%) to scientific vocabulary
Keywords
Repository
Python utilities for SBML
Basic Info
- Host: GitHub
- Owner: matthiaskoenig
- License: mit
- Language: HTML
- Default Branch: develop
- Homepage: https://sbmlutils.readthedocs.io/en/stable/
- Size: 331 MB
Statistics
- Stars: 41
- Watchers: 5
- Forks: 12
- Open Issues: 30
- Releases: 65
Topics
Metadata Files
README.md
.. image:: https://github.com/matthiaskoenig/sbmlutils/raw/develop/docs_builder/images/sbmlutils-logo-60.png :align: left :alt: sbmlutils logo
sbmlutils: python utilities for SBML
sbmlutils is a collection of python utilities for working with
SBML models implemented on top of
libsbml <http://sbml.org/Software/libSBML>__ and other libraries
with source code available from https://github.com/matthiaskoenig/sbmlutils <https://github.com/matthiaskoenig/sbmlutils>__.
Features include among others
- helper functions for model creation, manipulation, and annotation
- HTML reports of SBML models
https://sbml4humans.de <https://sbml4humans.de>__. - file converters (XPP)
The documentation is available on https://sbmlutils.readthedocs.io <https://sbmlutils.readthedocs.io>.
If you have any questions or issues please open an issue <https://github.com/matthiaskoenig/sbmlutils/issues>.
.. image:: docs/presentations/reproducibilitycenter2021/screenshot.png :target: https://youtu.be/SxIq8qeXxD0?t=1261 :alt: sbmlutils introduction :height: 200px
How to cite
.. image:: https://zenodo.org/badge/55952847.svg :target: https://zenodo.org/badge/latestdoi/55952847 :alt: Zenodo DOI
Contributing
Contributions are always welcome! Please read the contributing guidelines
<https://github.com/matthiaskoenig/sbmlutils/blob/develop/.github/CONTRIBUTING.rst>__ to
get started.
License
- Source Code: MIT
- Documentation:
CC BY-SA 4.0 <http://creativecommons.org/licenses/by-sa/4.0/>__
Funding
Matthias Knig is supported by the Federal Ministry of Education and Research (BMBF, Germany)
within the research network Systems Medicine of the Liver (LiSyM, grant number 031L0054)
and by the German Research Foundation (DFG) within the Research Unit Programme FOR 5151
"QuaLiPerF <https://qualiperf.de>__ (Quantifying Liver Perfusion-Function Relationship in Complex Resection -
A Systems Medicine Approach)" by grant number 436883643 and by grant number
465194077 (Priority Programme SPP 2311, Subproject SimLivA).
SBML4Humans was funded as part of Google Summer of Code 2021 <https://summerofcode.withgoogle.com/>__.
Matthias Knig has received funding from the EOSCsecretariat.eu which has received funding
from the European Union's Horizon Programme call H2020-INFRAEOSC-05-2018-2019, grant Agreement number 831644.
Installation
sbmlutils is available from pypi <https://pypi.python.org/pypi/sbmlutils>__ and
can be installed via::
pip install sbmlutils
Requirements
tkinter is required which can be installed on linux via::
apt-get install python-tk
apt-get install python3-tk
Please see the respective installation instructions for your operating system.
Develop version
The latest develop version can be installed via::
pip install git+https://github.com/matthiaskoenig/sbmlutils.git@develop
Or via cloning the repository and installing via::
git clone https://github.com/matthiaskoenig/sbmlutils.git
cd sbmlutils
pip install -e .
To install for development use::
pip install -e .[development]
2017-2024 Matthias Knig
Owner
- Name: Matthias König
- Login: matthiaskoenig
- Kind: user
- Location: Berlin
- Company: Humboldt University
- Website: https://livermetabolism.com
- Repositories: 146
- Profile: https://github.com/matthiaskoenig
Matthias König (PhD. in Biophysics) leads a junior research group for Systems Biology and Systems Medicine of the liver.
GitHub Events
Total
- Issues event: 6
- Watch event: 6
- Issue comment event: 2
- Push event: 15
Last Year
- Issues event: 6
- Watch event: 6
- Issue comment event: 2
- Push event: 15
Committers
Last synced: 9 months ago
Top Committers
| Name | Commits | |
|---|---|---|
| Matthias Koenig | k****t@g****m | 1,809 |
| sankha555 | f****9@p****n | 264 |
| yannickduport | y****6@z****e | 7 |
| Janosch Brandhorst | b****t@l****i | 5 |
| Mikolaj Dziurzynski | d****m@g****m | 1 |
| Gabriel Simmons | s****e@g****m | 1 |
Committer Domains (Top 20 + Academic)
Issues and Pull Requests
Last synced: 6 months ago
All Time
- Total issues: 111
- Total pull requests: 10
- Average time to close issues: 5 months
- Average time to close pull requests: about 1 hour
- Total issue authors: 11
- Total pull request authors: 2
- Average comments per issue: 0.36
- Average comments per pull request: 0.5
- Merged pull requests: 10
- Bot issues: 0
- Bot pull requests: 0
Past Year
- Issues: 5
- Pull requests: 0
- Average time to close issues: 25 minutes
- Average time to close pull requests: N/A
- Issue authors: 3
- Pull request authors: 0
- Average comments per issue: 0.2
- Average comments per pull request: 0
- Merged pull requests: 0
- Bot issues: 0
- Bot pull requests: 0
Top Authors
Issue Authors
- matthiaskoenig (99)
- DeepaMahm (2)
- sankha555 (2)
- ajfedorec (1)
- Gwathavron (1)
- jpsluka (1)
- dweindl (1)
- alifarhat40 (1)
- shoepfl (1)
- Lepujolh (1)
- castagninojose (1)
Pull Request Authors
- matthiaskoenig (9)
- sankha555 (1)
Top Labels
Issue Labels
Pull Request Labels
Packages
- Total packages: 1
-
Total downloads:
- pypi 422 last-month
- Total dependent packages: 1
- Total dependent repositories: 3
- Total versions: 60
- Total maintainers: 1
pypi.org: sbmlutils
sbmlutils are utilities for working with SBML.
- Homepage: https://github.com/matthiaskoenig/sbmlutils
- Documentation: https://sbmlutils.readthedocs.io
- License: LGPL-3.0
-
Latest release: 0.9.0
published over 1 year ago
Rankings
Maintainers (1)
Dependencies
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