Mondrian Map: Piet Mondrian’s Abstraction for Differential Pathway Analysis

Project Overview:

This repository contains notebooks and data files for conducting analysis and generating Mondrian Maps as described in a paper titled "Mondrian Map: Piet Mondrian’s Abstraction for Differential Pathway Analysis."

Notebooks:

The notebooks folder contains the following files:

1. 0-clinical-data-analysis.ipynb: Notebook for analyzing clinical data.
2. 1-data-preprocessing.ipynb: Notebook for preprocessing data. Generates files: genesets_FC.pkl, membership.zip, pag_before_DPA.zip, and pag_after_DPA.zip.
3. 2-mondrian-map-generation.ipynb: Notebook for generating Mondrian Maps. Requires membership.zip and pag_after_DPA.zip from the data folder.

Data Files:

The data folder contains the following files:

1. genesets_FC.pkl: File generated during data preprocessing.
2. membership.zip: Required for generating Mondrian Maps.
3. pag_before_DPA.zip: File generated during data preprocessing.
4. pag_after_DPA.zip: Required for generating Mondrian Maps.

To generate Mondrian Maps, place membership.zip and pag_after_DPA.zip in the same folder as 2-mondrian-map-generation.ipynb.

For detailed instructions on running the notebooks and utilizing the data files, please refer to the individual notebook files and accompanying documentation.

Mondrian Map Generation

Results