PPR Motif identification using Neural Network

Overview

This repository contains code and Keras model to run and deploy the Flask app PPR Scan, as well as resulting PPR annotations for Arabidopsis thaliana Araport11, which is then mannully curated. The model have been pre-trained to recognize 11 variants of PPR motif and TPR motif in given input sequences.

Getting Started

Creating virtual environments for python with conda

conda create -n dl -c anaconda python=3.6 numpy pandas matplotlib seaborn scikit-learn keras Flask gunicorn biopython jupyterlab 
sourace activate dl

Setting up a local server

git clone https://github.com/MolGen/pprscan.git
cd pprscan
python app.py

Sequence logo of Arabidopsis thaliana PPR-like motif variants

P

P1

P2

L1

L2

S1

S2

SS

TPR

E1

E2