ImageJ

CARE Fiji Plugin
Project	CSBDresden
URL	https://imagej.net/CARE
Source	on GitHub
License	BSD-2
Release	0.3.4
Date	Tue Dec 11 00:00:00 CDT 2018
Development status	Unstable
Support status	Active
Team
Founders	Deborah Schmidt
Leads	Deborah Schmidt, Benjamin Wilhelm, Florian Jug
Developers	Deborah Schmidt, Benjamin Wilhelm, Florian Jug
Debuggers	Deborah Schmidt, Benjamin Wilhelm
Reviewers	Deborah Schmidt, Benjamin Wilhelm
Support	Deborah Schmidt, Benjamin Wilhelm
Maintainers	Deborah Schmidt, Tobias Pietzsch, Benjamin Wilhelm

Install

ImageJ update site

The CSBDeep plugin can be installed from the ImageJ update site [1]. See the CSBDeep Wiki Pages for more details.

From source

1. Clone this repository.
2. Run the following command from inside the repo:

mvn -Dimagej.app.directory=/path/to/Fiji.app/ -Ddelete.other.versions=true

Run demos

1. Download the exemplary image data
2. Open Fiji.
3. Open an example image, e.g. `tribolium.tif`.
4. Run the plugin via `Plugins > CSBDeep > Demo`.
5. Run the plugin by pressing `Ok`.

If all goes well, an image will be displayed representing the result of the model execution.

See the CSBDeep Wiki Pages for more details.

Run your own model

1. Use the python code to train your network with your data. Export it as ZIP.
2. Open Fiji.
3. Open an image.
4. Run the plugin for any network via `Plugins > CSBDeep > Run your network`.
5. Load your exported network by pressing `Browse` on the `Import model (.zip)` line.
6. Run the plugin by pressing `Ok`.

If all goes well, an image will be displayed representing the result of the model execution.

See the CSBDeep Wiki Page for more details.

GPU support

Please read this page for GPU support.

License

This project is licensed under the BSD 2-clause "Simplified" License -- see the LICENSE.txt file for details.