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gemmapy: a Python Wrapper for the Gemma API

This is a Python wrapper for Gemma's RESTful API. Gemma is a web site, database and a set of tools for the meta-analysis, re-use and sharing of genomics data, currently primarily targeted at the analysis of gene expression profiles. Gemma contains data from thousands of public studies, referencing thousands of published papers.

Installation instructions

The package requires Python3.10+.

  1. Install it from a local copy

    git clone git@github.com:PavlidisLab/gemmapy.git
cd gemmapy
pip install .

  2. Install it from PyPI

    pip install gemmapy

Usage

To get started with gemmapy, read the Tutorial.

The full documentation can be found at https://pavlidislab.github.io/gemmapy/.

Citation

To cite Gemma, please use: Lim, N. et al., Curation of over 10 000 transcriptomic studies to enable data reuse, Database, 2021.