CODApivot

CODApivot is a user interface guided tool for multi-omic image and coordinate registration

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🚀 Key Features

• Project-Based Workflow: Organize your fixed and moving images, results, and associated data in project files within the GUI.
• Interactive Fiducial Point Selection: Dynamically adjust brightness, contrast, zoom, pan, flip, and rotate images to streamline fiducial point pair selection.
• Nonlinear Finetuning Registration: Optionally fine tune your fiducial point-based affine registration using automated nonlinear registration.
• Registration of coordinate data: Apply registration transforms directly to coordinate points directly in the app.

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⚙️ Installation Guide

📅 Step 1: Install Miniconda

Begin by downloading and installing Miniconda from the official Miniconda website.

🐍 Step 2: Set Up the CODApivot Environment

Create a new environment and activate it:

    conda create -n CODApivot python>3.8
    conda activate CODApivot

📦 Step 3: Install CODApivot

Install the CODApivot package via Git:

  pip install -e git+https://github.com/Kiemen-Lab/CODA_pivot.git#egg=CODApivot

⚠️ Note: Ensure Git is installed. If not, download it from git-scm.com. After installation, restart your IDE or terminal and reactivate the environment.

🖼️ Step 4: Launch the CODApivot Interface

To open the application, execute the CODApivot.py script in your terminal or IDE.

After launching, follow the built-in instructions or refer to the CODA pivot user guide (PDF) for a comprehensive walkthrough.

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📄 License

This project is distributed under the MIT License. See the LICENSE file for details.