https://github.com/arronelab/swrithe
Code to accompany writhe paper.
Science Score: 23.0%
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○CITATION.cff file
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○codemeta.json file
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✓DOI references
Found 1 DOI reference(s) in README -
✓Academic publication links
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○Scientific vocabulary similarity
Low similarity (6.9%) to scientific vocabulary
Repository
Code to accompany writhe paper.
Basic Info
- Host: GitHub
- Owner: arronelab
- Language: Jupyter Notebook
- Default Branch: main
- Size: 16.2 MB
Statistics
- Stars: 0
- Watchers: 1
- Forks: 0
- Open Issues: 0
- Releases: 2
Metadata Files
README.md
SWRITHE
iPython notebook and supporting data to accompany "The SKMT Algorithm: A method for assessing and comparing underlying protein entanglement"
This notebook allows you to compute writhe and average crossing number fingerprints of smoothed representations of protein backbones. The code downloads PDB files, and smoothes the alpha-carbon backbone to a minimal representation reserving the underlying topological structure. With these writhe fingerprints, once can analyse the backbone for large scale helical structures, and compare it to a database of smoothed structures to identify similarities.
Installation
We recommend using the SWRITHE package locally with Linux or MacOS. To install, run the below in the terminal.
shell
git clone https://github.com/arronelab/SWRITHE.git
cd SWRITHE
make
This notebook is maintained by Arron Bale, email me at arron.n.bale@durham.ac.uk if you need any help with installation or potential new features
Owner
- Name: Arron Bale
- Login: arronelab
- Kind: user
- Location: Durham, United Kingdom
- Website: https://research.ncl.ac.uk/mosmed/people/students/cohort22020-present/arronbalehehim.html
- Twitter: ArronBale
- Repositories: 2
- Profile: https://github.com/arronelab