GUI Image Selector

This project provides a Python-based graphical user interface (GUI) for visualizing, analyzing, and extracting data from TDMS files. The application allows users to select regions of an image, compute statistics, and save results.

Features

• Load and visualize data from .tdms files.
• Select channels and scan directions dynamically from dropdown menus.
• Manually select areas of interest on the image.
• Compute and display statistics for the selected region.

Requirements

The following Python packages are required to run the application:

numpy
pandas
matplotlib
tk
nptdms
openpyxl

Installation

All the commands below are executed in the terminal

1. Clone the repository:

   git clone https://github.com/CHILLQQ/cells_quadrants_extractor
   cd cells_quadrants_extractor

2. Install the dependencies:

   pip install -r requirements.txt

Usage

1. Run the application:

   python main.py

2. Use the GUI to:

   • Load .tdms files using the "Load Data File" button.
   • Select scan direction and channel from the dropdown menus.
   • Specify the size of the selection rectangle and physical dimensions.
   • Select a region on the image by dragging the mouse.
   • Compute statistics for the selected area.
   • Save the selected area to files.

GUI Elements

Buttons

• Load Data File: Opens a dialog to load a .tdms file.
• Save Selected Area: Saves the selected region as a .npy file.
• Compute Stats: Computes and displays mean and standard deviation for the selected region.
• Add New Area: Creates a new area selection object that is plotted on top of the previously plotted ones.
• Save Coordinates: Saves coordinates of all selected areas of the current file into a .txt file.
• Save Im: Save the current image with all selected areas plotted as a .png file.
• Drop: Drop the current selections and start over.

Dropdowns

• Scan Direction: Select scan direction (e.g., "Retrace (Frame 2)" or "Trace (Frame 1)").
• Channel: Select an AFM channel from the loaded file.

Inputs

• Rectangle Size (px): Specify the size of the selection rectangle in pixels (default: 256).

Example Workflow

1. Load a .tdms file containing data.
2. Select the desired scan direction and channel.
3. Use the mouse to select a region of interest on the image by pressing Add new area button.
4. Press Save Selected Area button to export all the channels for the selected area.
5. Keep repeeting steps 3 and 4 until enough areas are selected.
6. Press Save Im to save the image of the file with all the selected areas.
7. Press Add New Area one more time to save the coordinates of the latest selected area.
8. Press Save Coordinates to save a list of coordinates of all selected areas.