Geometricus Represents Protein Structures as Shape-mers derived from Moment Invariants
A structure-based, alignment-free embedding approach for proteins. Can be used as input to machine learning algorithms.
See the documentation.
Installation
Geometricus is a Python (3.7+) package with NumPy, SciPy, Numba and ProDy as dependencies.
Install with pip install geometricus
Usage
See the Getting Started page for example usage.
Publications
Janani Durairaj, Mehmet Akdel, Dick de Ridder, Aalt D J van Dijk, Geometricus represents protein structures as shape-mers derived from moment invariants, Bioinformatics, Volume 36, Issue Supplement_2, December 2020, Pages i718–i725, https://doi.org/10.1093/bioinformatics/btaa839
Janani Durairaj, Mehmet Akdel, Dick de Ridder, Aalt D.J. van Dijk, Fast and adaptive protein structure representations for machine learning, bioRxiv 2021.04.07.438777; doi: https://doi.org/10.1101/2021.04.07.438777
1 maintainer
Metadata
1 maintainer
Release files for geometricus 0.3.0
For a detailed explanation of source distributions (sdists) and built distributions (wheels), please see the package formats documentation.
Source distribution (sdist)
| File | Size | Uploaded | |
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| geometricus-0.3.0.tar.gz | 16.9 kB | Details |
Built distribution (wheel)
| File | Interpreter | ABI | Platform | Reset |
|---|---|---|---|---|
| geometricus-0.3.0-py3-none-any.whl | Python 3 | none | any | Details |
Total release size: 33.6 kB
Release files / geometricus-0.3.0.tar.gz
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