MATLAB: How to plot a sequence of images into one image using one colorscale as indicator of sequence position (Intensity-over-time)

cell arrayimage analysisMATLAB

Hello,

I want to see an intensity-over-time profile of an image sequence (i.e. the bleaching of a fluorophore over time). I created a 1×300 cell array of images á 128×128 pixel. Each cell resembles a frame of the sequence. Afterwards I subtracted the last frame from all other frames. Now, I want to encode the sequence position with one color to generate a single image with the information when the fluorophore bleached.

In short: I want to plot all images into one merged image, but coded with a color scale in that way, that i see from which sequence number the image came from.

I'm quite a beginner in MatLab, sorry for the missing technical terms. thanks!

Best Answer

Use jet(300) or some colormap to get an array of 300 colors, which is one unique color for each of your frames.

myColorMap = jet(300);

Then for each frame, convert to black and white, multiply by the colors for that frame. Something like

rgbForThisFrame{frameNumber} = cat(3, myColorMap(1)*grayImage, myColorMap(2)*grayImage, myColorMap(3)*grayImage);

Then average all 300 color images together to get the one color image that represents them all.

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Converting the grey image to pure blue with the same intensity is actually very easy, just use that image as the blue colour plane, and put 0 everywhere in the red and green planes:

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Converting the grey image to a colour that is not one of the primary is a bit more difficult. The easiest way is to do the conversion in the HSV colour space first. The grey image becomes the luminance (value), and you fix the hue plane to whatever constant you want. Then convert the HSV image to RGB:

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