# PlantDeepMeth

**Repository Path**: Bioinformaticslab/PlantDeepMeth

## Basic Information

- **Project Name**: PlantDeepMeth
- **Description**: plantdeepmeth
- **Primary Language**: Python
- **License**: Not specified
- **Default Branch**: master
- **Homepage**: https://gitee.com/Bioinformaticslab/PlantDeepMeth
- **GVP Project**: No

## Statistics

- **Stars**: 0
- **Forks**: 0
- **Created**: 2024-10-21
- **Last Updated**: 2025-01-16

## Categories & Tags

**Categories**: Uncategorized

**Tags**: None

## README

# PlantDeepMeth

#### Information

PlantDeepMeth is a novel deep learning model to predict DNA methylation states in plants and it is possible to speculate on the methylation status of the deletions inside the sequenced. PlantDeepMeth is composed of three parts: the DNA model, the Methylation model, and the Joint model. 

#### Installation

Before executing the scripts, install the required versions of TensorFlow, and Keras using the following commands:

```
pip install tensorflow-gpu==1.14
pip install keras==2.2.5
```


#### software architecture

The DNA model in PlantDeepMeth is designed as a convolutional neural network (CNN). The methylation model in PlantDeepMeth uses two bi-directional Gated Recursive Unit (GRU) layers to handle the sequential nature of the methylation data. The joint model in PlantDeepMeth receives as input the final hidden vectors of the DNA model and the methylation model, effectively integrating features learned from DNA sequences and the local methylation environment.