Abstract
[Figure: see text].
Highlights
MethodsMathematical Basis of CalTrack Calcium Transient Analysis
RATIONALE: Calcium transient analysis is central to understanding inherited and acquired cardiac physiology and disease
We developed CalTrack, a MatLab-based algorithm, to monitor fluorescent calcium transients in living cardiomyocytes, including isolated single cells or those contained in 3-dimensional tissues or organoids, and to analyze data acquired using photomultiplier tubes or employing line scans
Summary
Mathematical Basis of CalTrack Calcium Transient Analysis. CalTrack relies on the Bio-Formats toolbox[16] for MatLab (Mathworks, Inc, Natwick, MA). CalTrack initially reads all frames in the video stack and averages the value of all pixels to generate a mask. Where multiple cell segmentation is required, the average image is subjected to a difference of Gaussians filter[17] to increase contrast in local boundaries. Contrast-limited adaptive histogram equalization and erosion-dilation enhance this to produce a segmented cell mask. This is applied to extract the raw fluorescence within each cell per frame, as the sum of all pixels in each cell (n): n.
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