Pipeline for Tracking Neural Progenitor Cells

Automated methods for neural stem cell lineage construction become increasingly important due to the large amount of data produced from time lapse imagery of in vitro cell growth experiments. Segmentation algorithms with the ability to adapt to the problem at hand and robust tracking methods play a key role in constructing these lineages. We present here a tracking pipeline based on learning a dictionary of discriminative image patches for segmentation and a graph formulation of the cell matching problem incorporating topology changes and acknowledging the fact that segmentation errors do occur. A matched filter for detection of mitotic candidates is constructed to ensure that cell division is only allowed in the model when relevant. Potentially the combination of these robust methods can simplify the initiation of cell lineage construction and extraction of statistics