Science Score: 23.0%
This score indicates how likely this project is to be science-related based on various indicators:
-
○CITATION.cff file
-
✓codemeta.json file
Found codemeta.json file -
○.zenodo.json file
-
○DOI references
-
○Academic publication links
-
✓Committers with academic emails
1 of 2 committers (50.0%) from academic institutions -
○Institutional organization owner
-
○JOSS paper metadata
-
○Scientific vocabulary similarity
Low similarity (9.9%) to scientific vocabulary
Repository
a short python wrapper for the vienna rna package
Basic Info
- Host: GitHub
- Owner: jyesselm
- License: mit
- Language: Python
- Default Branch: main
- Size: 41 KB
Statistics
- Stars: 5
- Watchers: 1
- Forks: 2
- Open Issues: 0
- Releases: 0
Metadata Files
README.md
vienna
a short python wrapper for vienna tools (https://www.tbi.univie.ac.at/RNA/ViennaRNA/doc/html/install.html) Note I did not develop this software just built this short wrapper.
how to install
install anaconda
highly recommended to install anaconda first and create a py3 environment
```shell
to install conda on linux
wget https://repo.anaconda.com/miniconda/Miniconda3-latest-Linux-x8664.sh chmod +x Miniconda3-latest-Linux-x8664.sh ./Miniconda3-latest-Linux-x86_64.sh
conda create --name py3 python=3.7 --yes conda activate py3
to install conda on mac
https://docs.anaconda.com/anaconda/install/mac-os/
bash ~/Downloads/Anaconda3-2020.02-MacOSX-x86_64.sh ```
install vienna
Note this is just a wrapper so you must install the vienna fold code
```shell
this can be accomplished using conda
conda install -c bioconda viennarna
if you do not wish to use conda
you can install it via many options from the website
https://www.tbi.univie.ac.at/RNA/ ```
install vienna python package
```shell
vienna python package is avialible on PYPI
pip install vienna
you can also install it from github
git clone https://github.com/jyesselm/vienna cd vienna python setup.py install ```
how to use
```shell
import vienna fr = vienna.fold('GGGGAAAACCCC') print(fr) FoldResults(dotbracket='((((....))))', mfe=-5.4, ensdefect=1.62) ```
Owner
- Name: Joseph Yesselman
- Login: jyesselm
- Kind: user
- Repositories: 40
- Profile: https://github.com/jyesselm
I am an Assistant Professor of Chemistry at UNL. http://yesselmanlab.com/
GitHub Events
Total
Last Year
Committers
Last synced: over 3 years ago
All Time
- Total Commits: 27
- Total Committers: 2
- Avg Commits per committer: 13.5
- Development Distribution Score (DDS): 0.037
Top Committers
| Name | Commits | |
|---|---|---|
| Joe Yesselman | j****m@u****u | 26 |
| erik-whiting | e****k@e****m | 1 |
Committer Domains (Top 20 + Academic)
Issues and Pull Requests
Last synced: 11 months ago
All Time
- Total issues: 0
- Total pull requests: 3
- Average time to close issues: N/A
- Average time to close pull requests: 2 minutes
- Total issue authors: 0
- Total pull request authors: 1
- Average comments per issue: 0
- Average comments per pull request: 0.33
- Merged pull requests: 1
- Bot issues: 0
- Bot pull requests: 0
Past Year
- Issues: 0
- Pull requests: 0
- Average time to close issues: N/A
- Average time to close pull requests: N/A
- Issue authors: 0
- Pull request authors: 0
- Average comments per issue: 0
- Average comments per pull request: 0
- Merged pull requests: 0
- Bot issues: 0
- Bot pull requests: 0
Top Authors
Issue Authors
Pull Request Authors
- erik-whiting (3)
Top Labels
Issue Labels
Pull Request Labels
Packages
- Total packages: 1
-
Total downloads:
- pypi 98 last-month
- Total dependent packages: 1
- Total dependent repositories: 2
- Total versions: 7
- Total maintainers: 1
pypi.org: vienna
a short python wrapper for vienna tools
- Homepage: https://github.com/jyesselm/vienna
- Documentation: https://vienna.readthedocs.io/
- License: mit
-
Latest release: 0.7.0
published over 3 years ago
Rankings
Maintainers (1)
Dependencies
- wheel >=0.22
- actions/checkout v2 composite
- conda-incubator/setup-miniconda v2 composite