Detection (with cluster un-mixing) and tracking of neurons with EMC2

Short Description

This protocol

1- detects bright spots (neurons) with Wavelet spot detector

2- un-mix (i.e. detects individual spots in large clusters) with Laplacian of Gaussian (LoG) convolution & local maxima detection

3- Tracks spots (neurons) with enhanced Multiple-Hypothesis-Tracking (eMHT) implemented in the Spot Tracking blocks

4- Close tracking gaps with EMC2

This protocol can be slow, with a high computational load for large & long time lapse sequences due to the convolution and local maxima steps. For long/large movies, the protocol https://icy.bioimageanalysis.org/protocol/detection-and-tracking-of-neurons-with-rmc2/ should be preferred.

Documentation

Please refer to the documentation of

Spot detector https://icy.bioimageanalysis.org/plugin/spot-detector/

Spot tracking https://icy.bioimageanalysis.org/plugin/spot-tracking/

and

EMC2 https://icy.bioimageanalysis.org/plugin/elastic-motion-correction-concatenation-emc2-of-tracks/

for more details