Napari Live Flim

A plugin for real-time FLIM analysis

A plugin for real-time FLIM analysis

This napari plugin was generated with Cookiecutter using @napari's cookiecutter-napari-plugin template.

OpenScan TCSPC module and all dependencies.
- Verify FLIM electronics are compatible with OpenScan
Python and the napari package and all dependencies

You can install napari via pip:

pip install napari[all]

You can install napari-live-flim via pip:

pip install napari-live-flim

In MicroManager, set a port number in the device property setting named OpenScanFLIM-BH-TCSPC-SendFLIMHistogramsToUDPPort
In Napari, select Plugins > FLIM Viewer (napari-live-flim) to run the plugin. Enter the same port number to connect to OpenScan.
Begin acquisition within MicroManager.
Interact with the FLIM data in real-time within napari.
- Modify the FLIM Parameters and Display Filters settings as desired.
- Add selections to the Lifetime Image or Phasor Plot by clicking the relevant New Selection buttons.
- Manipulate the selections with the mouse cursor and modify the selection layer with the layer controls.
- Click the Snapshot button during acquisition to take a snapshot.
- Use the scroll bar under the Lifetime Image to recall a specific snapshot.
Stop scanning within MicroManager to end acquisition.

Contributions are very welcome. Tests can be run with tox, please ensure the coverage at least stays the same before you submit a pull request.

Distributed under the terms of the GNU GPL v3.0 license, "napari-live-flim" is free and open source software

If you encounter any problems, please file an issue along with a detailed description.

Version:

Last updated:

First released:

License:

Supported data:

Plugin type:

Open extension:

Save extension:

Python versions supported:

Operating system:

Requirements: