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Is there a way to extract the width/diameter of the contour lines?

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I have this image which is an intensity plot of my laser beam:
Now I want to find the horizontal and vertical (1/e^2) diameter (distance is 100 µm/px). Do you have any suggestions on how to go about fitting an ellipse at the 1/e^2 threshold.
the countour function seams to draw nice interpolated lines would there be any idea in trying to extract the information from this plot? If I can specify the counter to only be drawn at the 1/e^2 level?
  1 Comment
Micke Malmström
Micke Malmström on 18 Jan 2016
This is what I have so far which seams to do fine:
d=dir('*.cma'); & find all files from the Pyrocam III
for ii= 1:length(d)% 1:1%
data=data(55:end,:); % remove bad pixels
data=data./max(data(:)).*exp(2); % normalize and multiply by e^2
% data(data<0)=0; % Remove negative values, (not needed here)
% figure(1);clf
% imagesc(data);
% axis image; hold on
% colormap('jet');
% pause(0.01) % to see that it looks reasonable
% Draw contour
[C,h] = contour(data,'LineWidth',2, 'LevelList',1, 'LineColor','r');
% Calculate Horizontal and Vertical extent multiply by 0.1 mm/px

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Accepted Answer

Image Analyst
Image Analyst on 18 Jan 2016
Get a binary image of your data where it's more than 1/e^2
binaryImage = data > 1 / exp(2);
Now get the boundaries:
boundaries = bwboundaries(binaryImage);
x = boundaries{:,2};
y = boundaries{:,1};

More Answers (1)

Star Strider
Star Strider on 18 Jan 2016
If I understand correctly what you want, you can draw a specific contour (with a second call to contour) at the 1/e^2 level with:
C = contour(data, [1 1]*(1/e^2), 'LineStyle','none');
contour(data,'LineWidth',2, 'LevelList',1, 'LineColor','r');
The ‘C’ variable will then have the (x,y) coordinates of the ‘1/e^2’ contour.

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