Welcome to PEMT’s documentation!

Release notes : https://github.com/Fraunhofer-ITMP/PEMT/releases

PEMT: A patent enrichment tool for drug discovery.

PEMT takes a two-step approach to collect patent documents relevant for drug discovery.

The chemical_extractor module extraction of chemicals that directly regulate (i.e. activation or inhibition) genes of interest based on functional or biochemical assays found within ChEMBL.
The patent_extractor module interlinking these chemicals to patent documents by systematically querying SureChEMBL, a patent database.

General info

PEMT is a patent extractor tool that enables users to retrieve patents relevant to drug discovery. The framework is depicted in the graphic below

Installation

You can install PEMT package from pypi.

# Use pip to install the latest release
$ python3 -m pip install pemt

You may instead want to use the development version from Github, by running

$ python3 -m pip install git+https://github.com/Fraunhofer-ITMP/PEMT.git

For contributors, the repository can be cloned from GitHub and installed in editable mode using:

$ git clone https://github.com/Fraunhofer-ITMP/PEMT.git
$ cd PEMT
$ python3 -m pip install -e .

Dependency

Python 3.8+
Installation of chromedriver

Mandatory

Pandas
CheMBL Webresource
PubChemPy
Chromedriver

For API information to use this library, see the Developmental Guide.

Issues

If you have difficulties using PEMT, please open an issue at our GitHub repository.

Disclaimer

PEMT is a scientific tool that has been developed in an academic capacity, and thus comes with no warranty or guarantee of maintenance, support, or back-up of data.