How can you brighten certain portions of an image while keeping the other portions with their respective original brightness?

I am trying to increase the brightness of a brain atlas. I am trying to brighten the areas 17, 18, and 19 to be brighter than the other areas. I was given to problem to work on and the example given to me was: image(55,35) = 17. Then that pixel of (55,35) is the area of 17. But this does not make sense to me because how can you notice the difference in brightness of just one pixel out of the entire image (note that the atla I am working on is 91, 109, 91).

Answer 1

[Image Analyst]

I don't know which areas/regions in your image are labeled 17, 18, and 19. Are they certain regions of the brain comprised of thousands of pixels each?

Or are you talking about the intensity values?

Or does the image values somehow represent an area of something else?

It is possible to visually notice a difference of one gray level in an image under ideal conditions but it's very challending. Of course it's easy to get a difference of one gray level - a map of where the difference is more than 1 gray level but you have to define what your reference gray level is or where it comes from.

If you have any more questions, then attach your data and code to read it in with the paperclip icon after you read this:

TUTORIAL: How to ask a question (on Answers) and get a fast answer

[Alexandar]

So this is my code that runs through the slice images of a brain atlas:

% Load Atlas
            % Relies on https://www.fieldtriptoolbox.org/template/atlas/ and
            % https://github.com/fieldtrip/fieldtrip/tree/master/template/atlas and
            % https://www.gin.cnrs.fr/en/tools/aal/
            aalAtlas = ft_read_atlas('ROI_MNI_V4.nii');
            %aalX = 91; %size(aal.tissue,1);
            %aalY = 109; %size(aal.tissue,2);
            %aalZ = 91; %size(aal.tissue,3);
            image = ones(91, 109,'int8');
            help image
            image(:,:) = aalAtlas.tissue(:, :, 50); %the tissue is part of the 3D image of the Atlas that looks at tissue
            %imshow(image)
            image
            total = bwarea( image );
%put it in a for loop to display each sect ion
            for slice = 1:91
               image(:,:) = aalAtlas.tissue(:, :, slice);
               Colorimage = ind2rgb(image, colorcube);
               %HueBigArr = aalAtlas.tissue/128;
               %ValBigArr = HueBigArr;
               %NotGM = find(aalAtlas.tissue==0);
               %ValBigArr(NotGM) = 0.;
               imshow(Colorimage)
              % Bimage = resize(image,5);
              % imshow(Bimage)
            end
            size(aalAtlas.tissue); %this is written for reference of the size of Atlas

Specifically, this is the code for a button that I made for the app creator that loads the brain atlas images everytime you click the "brain atlas" button I created. After I click that button, this is code that loads from the command window which will be in my next comment.

[Alexandar]

the coordinate system appears to be 'aligned'
image is a variable of type int8.


image =

  91×109 int8 matrix

  Columns 1 through 22

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[Alexandar]

Continued:

Columns 45 through 66

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[Alexandar]

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[Alexandar]

To rephrase my question @Image Analyst, I am trying to make the regions of the array that have the numbers (or label's of the brain region) "2, 11, and 13" to be brighter while keeping the the other regions the same. I changed my numbers from before also since 17, 18, and 19 are not on there.

[Image Analyst]

It looks like your regions are already labeled.To make regions 2, 11, and 13 brighter by 10% first get those regions into a binay image

regions21113 = ismember(labeledImage, [2,11,13]);
% Make those 3 regions 10% brighter.
grayImage(regions21113) = uint8(1.10 * double(grayImage(regions21113)));

So I'm assuming you have a gray scale image called grayImage, and you have segmented and labeled that image so you now also have a labeled image where each continuous region is labeled with an ID number, such as by bwlabel

[Alexandar]

I'm using a colored image, not a greyscale. The colormap that I am using is "colorcube." So would you know how to make a colored image brighter than the rest?

[DGM]

You have an indexed image. If you want a specific color to be brighter, edit that entry in the colormap itself. The output of colorcube(M) is a Mx3 matrix. Just edit the appropriate rows.

[Alexandar]

@DGM

% Load Atlas
            % Relies on https://www.fieldtriptoolbox.org/template/atlas/ and
            % https://github.com/fieldtrip/fieldtrip/tree/master/template/atlas and
            % https://www.gin.cnrs.fr/en/tools/aal/
            aalAtlas = ft_read_atlas('ROI_MNI_V4.nii');
            BrainImage = ones(91, 109,'int8')
            %help Image;
            BrainImage(:,:) = aalAtlas.tissue(:, :, 50) %the tissue is part of the 3D BrainImage of the Atlas that looks at tissue
            %BrainImage

%put it in a for loop to display each sect ion
            for slice = 1:91
               BrainImage(:,:) = aalAtlas.tissue(:, :, slice);

               regions = ismember(BrainImage, [50,46,64]);
               ColorBrainImage = ind2rgb(BrainImage, colorcube);
               % Make those 3 regions a value brighter.
               ColorBrainImage(regions) = uint8(5 * double(ColorBrainImage(regions))); %double allows to multipy with decimals and uint brings it back to whole number

               BBrainImage = imresize(ColorBrainImage,10);
               imshow(BBrainImage)
            end

What do you mean by editing the entry of the colormap? Do you mean creating another line of code or editing the one I already have?

[Image Analyst]

Here's an example from your other question about how to edit a colormap:

https://www.mathworks.com/matlabcentral/answers/1753295-with-an-indexed-image-how-do-you-make-a-specific-color-to-be-brighter-by-editing-the-colormap-itsel#answer_999905

[DGM]

A simple example:

[inpict map] = imread('indexedblobs.png');
imshow(inpict,map)

% change the color the orange triangle in the middle (index #5)
map(6,:) = map(6,:)+0.2; % index is offset by 1
imshow(inpict,map)

[Alexandar]

@DGM How does (6,:) only target the orange triangle? Also, what does adding .2 do to it? Thank you again for your help in advance.

[DGM]

It doesn't target only the orange triangle. It targets all regions with the index 5. The orange triangle happens to be the only object of that color.

The color map looks like:

map =

0 0 0

0.1686 0.6824 0.7843

0.7333 0.7843 0.1686

0.7843 0.1686 0.5569

0.1686 0.7843 0.6706

0.7843 0.4471 0.1686

0.2039 0.1686 0.7843

0.5490 0.1686 0.7843

0.7843 0.2078 0.1686

0.2824 0.7843 0.1686

0.7843 0.1686 0.3647

0.4549 0.1686 0.7843

Since array indexing is 1-based and color indexing in indexed images is 0-based, a pixel with the color index 5 is filled with the sixth color from the color map.

Adding or subtracting a scalar value from a color is the most basic interpretation of "adjusting the brightness". I just picked an arbitrary amount. It doesn't have to be 0.2.