enrich-omics 0.0.2

Package to perform enrichment analysis in python using EnrichR and OpenTargets APIs

enrich_omics

📝 Table of Contents

• About
• Installation
• Tutorial
• Contributing
• Authors
• Acknowledgments

About

Python wrapper for EnrichR and OpenTargets API. Allows for visualisation of pathways enriched and disease associated to a given target or disease

EnrichR

• Choose from all EnrichR libraries (Transcription, Pathways, Drugs, etc). Default library is "KEGG_pathways_2021"
• Get table with enrichment results
• Get plot with enrichment results ans export it

OpenTargets

Open Target is currently only supporting the search of a single target

Target endpoint

• Convert Entrez to Ensemble if needed (OpenTargets API accepts only Ensemble IDs)
• Get description of the function of the target
• Get diseases associated to a certain target
• Plot diseases associated to a certain target
• Get table drugs associated to a certain target
• Plot the drugs that work for a given target and the diseases associated to it
• Plot the drugs associated to a given target and the trial phase they are currently in

Plots

• Export plots in SVG and PNG

Drug endpoint

• Get drug description
• Get a table with drug information (year of approval, drug type, toxicity, warnings)

Installation

pip install enrich-omics

Tutorial

Tutorials coming soon

Contributiong

Authors

• @saramasarone

🎉 Acknowledgements

• Hat tip to anyone whose code was used
• Inspiration
• References