Image Title Category Type Description Updated
need a thumbnail Bioconductor Software 05/08/2018 - 15:24
cvMatch_Template Software Component

It implements the template matching function from the OpenCV library. The java interface of OpenCV was done through the javacv library.

05/09/2018 - 04:06
Template Matching and Slice Alignment--- ImageJ Plugins Software Collection

This ImageJ plugin contains two functions. The first one is the cvMatch_Template. It implements the template matching function from the OpenCV library.

05/09/2018 - 04:08
need a thumbnail Excel Software 05/07/2018 - 18:29
CSBDeep, a toolbox for Content-aware Image Restoration (CARE) in Knime Software Collection, Component

Deep learning based restoration, with guidelines for training. See also the Fiji plugin.

05/07/2018 - 18:25
CARE CSBDeep, a toolbox for Content-aware Image Restoration (CARE) in Fiji Software Component

Deep learning for fluorescence image restoration (denoising, deconvolution). Requires training on your data set but the procedure is described.

05/07/2018 - 18:20
need a thumbnail MATLAB Optimization toolbox Software 04/28/2018 - 18:49
need a thumbnail MATLAB Statistics toolbox Software 04/28/2018 - 18:49
need a thumbnail scipy Software 04/27/2018 - 01:54
need a thumbnail PIL Software 04/27/2018 - 01:54
need a thumbnail numpy Software 04/27/2018 - 01:54
need a thumbnail R Project for Statistical Computing Software 04/18/2018 - 11:45
Neuroconductor Software Collection

Neuroconductor is an open-source platform for rapid testing and dissemination of reproducible computational imaging software, specialized in brain medical imaging (MRI, fMRI, DTI, etc...) but that could be used on a wider range of images. The goals of the project are to:

04/18/2018 - 11:45
CompuCell3D Software Collection

CompuCell3D is a flexible scriptable modeling environment, which allows the rapid construction of sharable Virtual Tissue in-silico simulations of a wide variety of multi-scale, multi-cellular problems including angiogenesis, bacterial colonies, cancer, developmental biology, evolution, the immune system, tissue engineering, toxicology and even non-cellular soft materials. CompuCell3D models have been used to solve basic biological problems, to develop medical therapies, to assess modes of action of toxicants and to design engineered tissues.

05/06/2018 - 16:07
elastix logo elastix Software Collection

Elastix is a toolbox for rigid and nonrigid registration of (medical) images.

Elastix is based on the ITK library, and provides additional algorithms for image registration. 

The software can be run as a single-line command, making it easy to include in larger scripts or workflows. The user needs to edit a configuration file that contains all relevant parameters for registration: transformation model, metric used to comapre images, optimization algorithm, mutliscale pyramidal representation of images...

04/11/2018 - 13:03
CaPTk Cancer Imaging Phenomics Toolkit (CaPTk) Software Collection

CaPTk is a software platform for analysis of radiographic cancer images, currently focusing on brain, breast, and lung cancer. CaPTk integrates advanced, validated tools performing various aspects of medical image analysis, that have been developed in the context of active clinical research studies and collaborations toward addressing real clinical needs.

05/08/2018 - 04:52 Training Material 03/20/2018 - 18:06
NiftyNet Software Collection

NiftyNet is a TensorFlow-based open-source convolutional neural networks (CNNs) platform for research in medical image analysis and image-guided therapy. NiftyNet’s modular structure is designed for sharing networks and pre-trained models. Using this modular structure you can:

  • Get started with established pre-trained networks using built-in tools;
  • Adapt existing networks to your imaging data;
  • Quickly build new solutions to your own image analysis problems.
05/08/2018 - 15:36
ParaViewWeb in Galaxy Docker ParaViewWeb Software Component

This ParaViewWeb Docker container is used by the Galaxy Project.  Paraview is an VTK based visualization server, for 3D.

03/16/2018 - 12:55
Galaxy imaging workflow Galaxy Image Analysis Tools Software Collection

Image analysis tools to be used within Galaxy

03/16/2018 - 12:51