Matlab Batch Coloc For Many Channels #Matlab #EasyXT #Coloc #Imaris

batchColoc.m

% Get EasyXT at:
% https://github.com/lacan/EasyXT
% The very first time you run it, use
% X = EasyXT('setup')
% To tell the XTension where the Imaris Executable file is.

% Disclaimer
% This code is provided as-is and hopefully will be of some use to people
% Olivier BURRI, Romain GUIET @ BIOP (EPFL - BioImaging & Optics Platform), July 2015

% Start EasyXT
X = EasyXT;

% Here we want to compare the first channel with a fixed threshold to a bunch of other channels

% Define the Channels
ch1 = 1;
ch2List = 2:10;

% Define the Thresholds
th1 = 50;
th2List = [10 12 31 45 23 54 12 11 12 44];

% The results will be saved to a table (NEEDS Matlab 2015a)
mytable = [];

for i = 1:numel(ch2List)
    colocResults = X.Coloc([ch1,ch2List(i)],[th1,th2List(i)]);
    
    if isempty(mytable)
        % if the table is empty, Make the first one
        % convert from structure to table
        mytable = struct2table(colocResults);
        mytable.Ch1 = ch1;
        mytable.Ch2 = ch2List(i);
        mytable.Th1 = th1;
        mytable.Th2 = th2List(i);
        
    else
        % write results in a temp structure
        % convert from structure to table tempTable = struct2table(colocResults);
        tempTable = struct2table(colocResults);
        mytable.Ch1 = ch1;
        mytable.Ch2 = ch2List(i);
        mytable.Th1 = th1;
        mytable.Th2 = th2List(i);
        % and append
        mytable = [mytable; tempTable];
    end
    
    disp (sprintf('Coloc Channel %d(%d) vs. Channel %d(%d) DONE',ch1,th1, ch2List(i), th2List(i)) )
end