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PyToxo: a Python tool for calculating penetrance tables of high-order epistasis models.
Borja González-Seoane1, Christian Ponte-Fernández2, Jorge González-Domínguez3
1Facultad de Informática, Universidade da Coruña, 15071, A Coruña, Spain.
BMC Bioinformatics
|April 3, 2022
Summary
PyToxo is a new Python tool that generates penetrance tables for high-order epistasis models. This open-source software aids in understanding complex traits and diseases by analyzing gene interactions.
Area of Science:
- Genetics
- Computational Biology
- Bioinformatics
Background:
- Epistasis describes gene interactions influencing phenotypes.
- High-order epistasis involves more than two gene loci.
- Understanding high-order epistasis is crucial for complex traits.
Purpose of the Study:
- To introduce PyToxo, a novel Python tool.
- To facilitate the generation of penetrance tables for epistasis models.
- To support research into high-order gene interactions.
Main Methods:
- Developed a Python-based software tool, PyToxo.
- Implemented functionality to model any-order epistasis.
- Enabled the use of realistic penetrance and heritability values.
Main Results:
- PyToxo efficiently generates penetrance tables for high-order epistasis.
- Achieved high-precision results in a short computation time.
- The tool is open-source with user-friendly interfaces.
Conclusions:
- PyToxo serves as a valuable resource for the scientific community.
- Facilitates the evaluation of algorithms for detecting high-order epistasis.
- Aids in advancing the discovery of complex disease causes.
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