A brief study on 'Dynamic Imaging in STED'

The innovation of STED technique was a breakthrough in far-field fluorescence light microscopy. We can now image information beyond Abbe's diffraction limit and enter a new world of super-resolution imaging using light microscopy. Let's discuss advancements in STED as an effective method for dynamic imaging.

Please follow the links below to watch a video presentation on this topic:

https://www.youtube.com/watch?v=Rz0KMdvwVz0&t=15s

OR

https://www.linkedin.com/feed/update/urn:li:activity:6346789826188099584

How to write multiple images as a video file using MATLAB?

% Select input image folder

image_folder = uigetdir('F:\','Select input image folder');
filenames=dir(fullfile(image_folder,'*.tiff'));
display(filenames(1));
total_images=numel(filenames);

% Select output image folder
op_im_folder = uigetdir('F:\','Select output image folder');

% Define video writer
videoPathName = strcat(op_im_folder,'\Video',datestr(now,'yyyymmddTHHMMSS'),'.avi');
writerObj = VideoWriter(videoPathName,'Uncompressed AVI');
writerObj.FrameRate = 2;
open(writerObj);

figure;
for n = 2:10
    full_name = fullfile(image_folder,filenames(n).name);
    input_image = imread(full_name);

    % Do image processing here. output_image = result of processing

    imagesc(output_image);colormap(gray);
    frame = getframe;
    writeVideo(writerObj,frame);
end

% Close video writer object
close(writerObj);

disp('Operation completed');

How to read and write multiple TIFF images (i.e. folder access) having negative values using MATLAB?

% Select input image folder

image_folder = uigetdir('F:\','Select input image folder');
filenames=dir(fullfile(image_folder,'*.tiff'));
display(filenames(1));
total_images=numel(filenames);

% Select output image folder
op_im_folder = uigetdir('F:\','Select output image folder');

% Iterate through all the images
for n = 1:1:total_images
      full_name = fullfile(image_folder,filenames(n).name);
      input_image = imread(full_name);
     
      % do processing here, Output_image = result of processing
      % (typecast int32 or appropriate datatype for negative values and use the same information in            % 'BitsPerSample' tag)

      % Create name of output image file
      file_name=strcat('OutputImage_',num2str(n));
      file_name = strcat(op_im_folder,'\',file_name,'.tif');
     
      % Here, I'm writing data as TIFF images as it can save negative pixel values.
      % This can be handy if we need subtract two images to eliminate background information.
      % In other cases, the function 'imwrite' is easy to use.
      tiffObj = Tiff(file_name,'w');
      setTag(tiffObj,'ImageLength',size(Output_image,1))
      setTag(tiffObj,'ImageWidth',size(Output_image,2))
      setTag(tiffObj,'Photometric',Tiff.Photometric.MinIsBlack)
      setTag(tiffObj,'BitsPerSample',32)
      setTag(tiffObj,'SamplesPerPixel',size(Output_image,3))
      setTag(tiffObj,'SampleFormat', Tiff.SampleFormat.Int)
      setTag(tiffObj,'Compression',Tiff.Compression.None)
      setTag(tiffObj,'PlanarConfiguration',Tiff.PlanarConfiguration.Chunky)
      setTag(tiffObj,'Software','MATLAB')
      write(tiffObj,Output_image);
end

% Close TIFF object
close(tiffObj);

disp('Operation completed');