napari-simple-tracker 0.1.0

napari plugin for multi-track ROI FRAP analysis with double normalization

Napari_Simple_Tracker

Napari_Simple_Tracker is a lightweight and user-friendly napari plugin for ROI tracking and FRAP analysis in time-lapse image data.
It is designed to remain intentionally simple while providing the core functionality typically required for routine quantitative analysis.

• Simple: point-based interaction with minimal configuration
• Practical: tracking, intensity plotting, CSV export, and session save/load are included
• Readable: ROI masks and track IDs are displayed directly in the napari viewer

Capabilities

Simple_Tracker

• Multi-track ROI tracking
• Linear interpolation across frames
• Mean intensity measurement within circular ROIs
• Plot generation
• CSV export
• Session save/load

Simple_FRAP_analysis

• FRAP analysis using a main ROI, with optional reference and background ROIs
• Background correction
• Double normalization
• Full-scale normalization
• Plot generation
• CSV export
• Session save/load

Installation

This package is published on PyPI as napari-simple-tracker.

Install with pip

Install the plugin into an environment where napari is already available:

python -m pip install napari-simple-tracker

Install from napari

1. Launch napari.
2. Open Plugins -> Install/Uninstall Plugins....
3. Search for napari-simple-tracker and install it.

If you use Install by name/URL, enter the package name napari-simple-tracker.

Install from source

If you want the latest local version from this repository:

git clone https://github.com/Aohirovet/Napari_Simple_Tracker.git
cd Napari_Simple_Tracker
python -m pip install .

If you are using a dedicated environment for napari, activate that environment before running the install command.

Usage

After installation, open napari and start either widget from:

Plugins -> Napari Simple Tracker -> Simple_Tracker

or

Plugins -> Napari Simple Tracker -> Simple_FRAP_analysis

Quick Start

Open image
  -> place Points
  -> open plugin
  -> run analysis
  -> inspect masks, plots, and CSV output

Simple_Tracker

1. Load a time-series image in napari.
2. Create one Points layer for each object to be tracked.
3. Mark the object center across multiple frames.
4. Open Plugins -> Napari Simple Tracker -> Simple_Tracker.
5. Press Run Simple Tracker.

Simple_FRAP_analysis

1. Load a time-series image in napari.
2. Create Points layers for the main ROI.
3. Create one Points layer for the reference ROI.
4. Optionally create one Points layer for the background ROI.
5. Open Plugins -> Napari Simple Tracker -> Simple_FRAP_analysis.
6. Select the relevant layers and ROI radii, then press Run FRAP Analysis.

Documentation

More detailed usage notes, supported image dimensions, output columns, session behavior, and common errors are documented here:

• Usage guide index
• Simple Tracker guide
• FRAP Analysis guide

License

MIT License