nuclei

QuantCenter is the framework for 3DHISTECH image analysis applications. with the goal of helping the pathologists to diagnose in an easier way. QuantCenter, is optimized for whole slide quantification. It has a linkable algorithm concept that tries to provide an easy-to-use and logical workflow. The user has different quantification modules that he or she could link one after other to fine-tune or to speed up the analysis.

## About TANGO software is an open-source software for Analysis of Nuclear Genome Organization. It is composed of an ImageJ plugin for batch processing and analysis, and a R package for statistical analysis. Reference: 2528 ## Some key features - Image import uses bioimage formats. - Construction of workflow in GUI by choosing filters / segmentation strategy for - Prefiltering - Segmentation - Postfiltering - Isolated nuclei could individually be inspected, deleted from list and subjected for detailed analysis. - Uses MCIB3D library as backend. - Basic usage is to segment nucleus, crop them to single nucleus objects, segment substructures within objects and measure their properties. - Optionally R can be connected to do detailed analysis of results. - Uses MongoDB to manage huge data set.

This workflow is used to track multiple (appear/disappear, dividing and merging) objects in presumably big 2D+t or 3D+t datasets. It is best suitable for roundish objects or spots. Tracking is done through segmentation, which can be obtained from ilastik pixel classification, or imported from other tools. Users should provide a few object level labels, and the software predicts results on the rest of the image or new images with similar image characteristics. As a result, all objects get assigned random IDs at the first frame of the image sequence and all descendants in the same track (also children objects such as daughter cells) inherit this ID.

Fully-automated cell tracking of 2D+time or 3D+time images with some parameter tuning

Image segmentation based on the MOSAIC Discrete region competition algorithm.