Re: Analysis of Ca2+ waves dynamics with ImageJ

Posted by Pedro J CamelloDr Pedro J Camello on Aug 06, 2015; 4:21pm
URL: http://imagej.273.s1.nabble.com/Analysis-of-Ca2-waves-dynamics-with-ImageJ-tp5013907p5013935.html

Hi Olga,

two possible ways (I assume you have stack files):
1- if you have clear the path which speed you want to calculate, simply mark two ROIs, plot their Ca2+ traces and calculate the time needed for the signal to reach a given threshold (50 of maximal response is typical, but I prefer the real initiation of the local (ROI) response -for example the response point reaching x2 standard deviation of preceding resting trace-). You divide space/time and that´s all.

2- you can also draw a line or polyline and use Stack--Reslice along the pathway you want to investigate. You´ll get a kymograph (Y will be time and X will be space) and each horizontal line is the fluorescence along the path -the line you drew- for each frame  -each time point- of your stack. Response will show as gradients ane slope would be speed.

Hope this helps

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