Structure Content

Recent progress in image-based spatial RNA profiling enables to spatially resolve tens to hundreds of distinct RNA species with high spatial resolution. It hence presents new avenues for comprehending tissue organization. In this context, […]

Cytomine is an open-source, rich internet application for collaborative analysis of multi-gigapixel images (incl. whole-slide histology and cytology images) developed since 2010 at the Systems and Modeling Unit, Montefiore Institute and GIGA-Research, University of […]

We started a project for a new open-source image processing software platform dedicated to community work (de Chaumont et al, Nature Methods 2012). It includes a flexible framework designed around and with a native […]

MaMuT is an end user plugin that combines the BigDataViewer and TrackMate to provide an application that allow browsing, annotating and curating annotations for large, multi-view images. Built in collaboration with Tobias Pietzsch, along with the group of […]

The PG-URE estimator is a statistical tool that can be used to assess the performance of image denoising algorithms in presence of mixed Poisson-Gaussian noise. In the spirit of reproducible research, the Matlab code […]

TrackMate TrackMate is your buddy for your everyday tracking.   TrackMate provides the tools to perform single particle tracking (SPT). SPT is an image analysis challenge where the goal is to segment and follow […]

Zellige is a software tool allowing the automated extraction of a non-prescribed number of various surfaces from a 3D image acquired by fluorescence microscopy. The program is available through a Fiji plugin.