PyGenePlexus: a Python package for gene discovery using network-based machine learning.
Ontology highlight
ABSTRACT: Summary
PyGenePlexus is a Python package that enables a user to gain insight into any gene set of interest through a molecular interaction network informed supervised machine learning model. PyGenePlexus provides predictions of how associated every gene in the network is to the input gene set, offers interpretability by comparing the model trained on the input gene set to models trained on thousands of known gene sets, and returns the network connectivity of the top predicted genes.Availability and implementation
https://pypi.org/project/geneplexus/ and https://github.com/krishnanlab/PyGenePlexus.Supplementary information
Supplementary data are available at Bioinformatics online.
SUBMITTER: Mancuso CA
PROVIDER: S-EPMC9900208 | biostudies-literature | 2023 Feb
REPOSITORIES: biostudies-literature
Publications
PyGenePlexus: a Python package for gene discovery using network-based machine learning.
Mancuso Christopher A CA Liu Renming R Krishnan Arjun A
Bioinformatics (Oxford, England) 20230201 2
<h4>Summary</h4>PyGenePlexus is a Python package that enables a user to gain insight into any gene set of interest through a molecular interaction network informed supervised machine learning model. PyGenePlexus provides predictions of how associated every gene in the network is to the input gene set, offers interpretability by comparing the model trained on the input gene set to models trained on thousands of known gene sets, and returns the network connectivity of the top predicted genes.<h4>A ...[more]
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