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PyIOmica: Longitudinal Omics Analysis and Classification
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Abstract
Summary
PyIOmica is an open-source Python package focusing on integrating longitudinal multiple omics datasets, characterizing, and classifying temporal trends. The package includes multiple bioinformatics tools including data normalization, annotation, classification, visualization, and enrichment analysis for gene ontology terms and pathways. Additionally, the package includes an implementation of visibility graphs to visualize time series as networks.
Availability and implementation
PyIOmica is implemented as a Python package (pyiomica), available for download and installation through the Python Package Index (PyPI) (
https://pypi.python.org/pypi/pyiomica
), and can be deployed using the Python import function following installation. PyIOmica has been tested on Mac OS X, Unix/Linux and Microsoft Windows. The application is distributed under an MIT license. Source code for each release is also available for download on Zenodo (
https://doi.org/10.5281/zenodo.3342612
).
Contact
gmias@msu.edu
Title: PyIOmica: Longitudinal Omics Analysis and Classification
Description:
Abstract
Summary
PyIOmica is an open-source Python package focusing on integrating longitudinal multiple omics datasets, characterizing, and classifying temporal trends.
The package includes multiple bioinformatics tools including data normalization, annotation, classification, visualization, and enrichment analysis for gene ontology terms and pathways.
Additionally, the package includes an implementation of visibility graphs to visualize time series as networks.
Availability and implementation
PyIOmica is implemented as a Python package (pyiomica), available for download and installation through the Python Package Index (PyPI) (
https://pypi.
python.
org/pypi/pyiomica
), and can be deployed using the Python import function following installation.
PyIOmica has been tested on Mac OS X, Unix/Linux and Microsoft Windows.
The application is distributed under an MIT license.
Source code for each release is also available for download on Zenodo (
https://doi.
org/10.
5281/zenodo.
3342612
).
Contact
gmias@msu.
edu.
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