Software tools

DeepImageJ plugin

The ZIP file is a plugin for ImageJ or Fiji. It contains all the necessary libraries (JAR files) to load and run TensorFlow models on any OS: Windows, Mac OSX, Linux.

One-click Installation: Unzip the ZIP file and store the 5 JAR files into the plugins folder of ImageJ or Fiji.

How to use: Check the Documentation of the plugin.

Source code: GitHub Java source code of the plugin.

The ZIP file consists of 3 plugins: Windows, Mac OSX, Linux.

DeepImageJ Run: This plugin applies the neural network to an input image (it is macro-recordable).

DeepImageJ Explore: This plugin allows to explore all the installed models.

DeepImageJ BuildBundledModel: This plugin allows to build a bundled models from a TensorFlow models, no coding is needed.

Converter Keras to TensorFlow

Python code and examples in GitHub.

Conditions of use

The DeepImageJ project is an open source software (OSS) under the BSD 2-Clause License. All the resources provided here are freely available. As a matter of academic integrity, we strongly encourage users to include adequate references whenever they present or publish results that are based on the resources provided here.


Ecole Polytechnique Fédérale de Lausanne
Initiative Imaging@EPFL
Biomedical Imaging Group


Universidad Carlos III de Madrid
Bioengineering and Aerospace Engineering Department