function result = custom_analysis( eXT, analyseAll )

%% This method stub should be written by the user.

% The user recceives a handle to EasyXT (eXT) through which

% they can access all the objects from the Imaris Scene and compute

% a measurement.

% the analyseAll object is a reference to the EasyXT_GUI 'Analyze All'

% command. It could be useful to run this command before getting statistics

% or other objects as it happens that Imaris sometimes doens't refresh things

% most of the time you can ignore it.

% The output 'result' is a Matlab table that should contain the columns and rows

% that this script will have computed. The image name will be automatically added

% by EasyXT_GUI. This will then be saved as a CSV file by EasyXT_GUI at the end

% of the processing.

result = table();

% This simple example shows how to get the total number of Imaris Spots

% in the dataset

result.Channels = eXT.GetSize('C');

result.Slices = eXT.GetSize('Z');

% Get the number of 'Spots' Objects, not the number of spots per object

nSpots = eXT.GetNumberOf('Spots');

if nSpots > 0

spot = eXT.GetObject('Type', 'Spots', 'Number', 1);

% Strings should be as cell arrays. It's a Matlab thing, I think

result.SpotName = {eXT.GetName(spot)};

end

result.nSpots = nSpots;

% A More detailed example showing how to get the mean intensity for

% each spot in a given channel

result = table();

if nSpots > 0

spot = eXT.GetObject('Type', 'Spots', 'Number', 1);

stats = eXT.GetSelectedStatistics(spot, 'Intensity Mean', 'Channel', 3);

% Strings should be as cell arrays. It's a Matlab thing, I think

result.SpotID = stats.ids;

result.Ch3Mean = stats.values;

end

end