Plant_Analysis

Plant analysis pipeline for greenhouse data analysis

Installation

This repository is tested with Python 3.10. It is recommended to use the same Python version for smoother installation and running.
Use pip to install the dependencies using requirements.txt file

Download the following dataset zip files from google drive folder

Raw_Images.zip (Contains 7 cotton plants)
Raw_Images_Duplicated.zip (Duplicated cotton plants to make a dummy dataset of 100 plants. This can be useful to check the latency of the pipeline for a large number of plants)
Rice_Corn_raw_images_plantwise.zip (Contains Rice and Corn plants)

Unzip these files into a dataset folder and specify the folder path of a dataset you would like as input folder path in the GUI

Run ''' python gradio_app.py ''' to launch the GUI
Check the GUI usage guide here
Use ''' share=True ''' option in ''' gradio_app.py ''' in order to get a publicly shareable link

Run ''' python gradio_viz_app.py ''' to launch visualization tool
In the GUI, insert the appropriate results folder path to check the visualization of results

Name		Name	Last commit message	Last commit date
Latest commit History 17 Commits
Connect_Components_Preprocessing.py		Connect_Components_Preprocessing.py
GUI.py		GUI.py
Image_Segmentation.py		Image_Segmentation.py
Image_Stitching.py		Image_Stitching.py
Plant_Analysis.py		Plant_Analysis.py
Plant_Phenotypes.py		Plant_Phenotypes.py
README.md		README.md
gradio_app.py		gradio_app.py
gradio_viz_app.py		gradio_viz_app.py
pipeline_config.yaml		pipeline_config.yaml
requirements.txt		requirements.txt
yolo_segmentation_model.pt		yolo_segmentation_model.pt