MATLAB Answers

Diondra
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Is it possible to numerically label a segmented image?

Asked by Diondra
on 23 Jun 2015
Latest activity Commented on by Adam Danz
on 23 Jun 2015
I've written some code to segment, count, and analyze the properties of bacterial colonies in a petri dish. Now, I would like to use principal component analysis to visualize the diversity of bacterial strains present in a given sample. My current method yields the PCA and plots 2 components against each other and even allows me to identify outlier points by number; however, I currently have no way of knowing which colony in my image actually corresponds to number "112" for example. Does anyone know of a way to overlay the colony numbers onto the original image so that I can have a reference point to make sense of the PCA data? I've attached my code if that's helpful.
Thank you in advance!

  1 Comment

Hello Katalin, if you have the x,y coordinates of the colonies, you can use labelpoints.m found in the file exchange. This function labels large groups of points like this: labelpoints(x-vector, y-vector, label-string) and it has an optional outlier parameter that will only label the outliers. But this won't be helpful if you don't have vectors of X,Y values.

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1 Answer

Answer by Katalin
on 23 Jun 2015
 Accepted Answer

Hello! Try this:
M = im2uint8(label/NUM);
imshow(M)
s = regionprops(M, 'Centroid');
hold on
for k = 1:numel(s)
c = s(k).Centroid;
text(c(1), c(2), sprintf('%d', k), ...
'HorizontalAlignment', 'center', ...
'VerticalAlignment', 'middle', 'Color', 'red', 'fontsize',12);
end
hold off

  1 Comment

Thank you so much!!

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