CellCognition
CellCognition is a free open-source computational framework for quantitative analysis of high-throughput fluorescence microscopy images in the field of bioimage informatics and systems microscopy. The CellCognition framework uses image processing, computer vision and machine learning techniques for single-cell tracking and classification of cell morphologies. This enables measurements of temporal progression of cell phases, modeling of cellular dynamics and generation of phenotype map.
Features
CellCognition uses a computational pipeline which includes image segmentation, object detection, feature extraction, statistical classification, tracking of individual cells over time, detection of class-transition motifs, and HMM correction of classification errors on class labels.The software is written in Python 2.7 and binaries are available for Windows and Mac OS X.