README.md

pygene

A simple Gradio WebUI to find details about a gene and its 3D visualization using Python

Tested using Windows 11. I'm not a Python pro and there will be a lot of bugs in the program. A bug report and a fix is appreaciated!

Requirements

• Conda (optional, recommended)
• Gradio
• Biopython
• PyPDB
• wget

Setup

Create Conda Environment (Optional)

conda create --name pygene

Clone pygene repo and move to the folder

git clone https://github.com/Simplegram/pygene.git
cd pygene

Install Requirements

pip install -r requirements

Run

Run with

python pygene.py

All PDB files are saved to pdbs folder. Create one in the root directory.

Resources and guides used

• PyPDB
• NCBI
• RSCB
• 3dmol.js
• Biopython
• Gradio WebUI
• Visualize proteins on Hugging Face Spaces - Simon Duerr

Many thanks to Simon Duerr for his implementation of py3dmol and protein visualization with HTML