Diffusion Spots And Surface Distance Map XTension (spot-count) Browse

xt-distance-maps/SpotsToSurfacesDistances.m
cf97da8f5d33spot-count

SpotsToSurfacesDistances.m
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			function varargout = SpotsToSurfacesDistances(varargin)
			% SPOTSTOSURFACESDISTANCES MATLAB code for SpotsToSurfacesDistances.fig
			% SPOTSTOSURFACESDISTANCES, by itself, creates a new SPOTSTOSURFACESDISTANCES or raises the existing
			% singleton*.
			%
			% H = SPOTSTOSURFACESDISTANCES returns the handle to a new SPOTSTOSURFACESDISTANCES or the handle to
			% the existing singleton*.
			%
			% SPOTSTOSURFACESDISTANCES('CALLBACK',hObject,eventData,handles,...) calls the local
			% function named CALLBACK in SPOTSTOSURFACESDISTANCES.M with the given input arguments.
			%
			% SPOTSTOSURFACESDISTANCES('Property','Value',...) creates a new SPOTSTOSURFACESDISTANCES or raises the
			% existing singleton*. Starting from the left, property value pairs are
			% applied to the GUI before SpotsToSurfacesDistances_OpeningFcn gets called. An
			% unrecognized property name or invalid value makes property application
			% stop. All inputs are passed to SpotsToSurfacesDistances_OpeningFcn via varargin.
			%
			% *See GUI Options on GUIDE's Tools menu. Choose "GUI allows only one
			% instance to run (singleton)".
			%
			% See also: GUIDE, GUIDATA, GUIHANDLES

			% Edit the above text to modify the response to help SpotsToSurfacesDistances

			% Last Modified by GUIDE v2.5 15-Mar-2016 15:16:26

			% Begin initialization code - DO NOT EDIT
			gui_Singleton = 1;
			gui_State = struct('gui_Name', mfilename, ...
			'gui_Singleton', gui_Singleton, ...
			'gui_OpeningFcn', @SpotsToSurfacesDistances_OpeningFcn, ...
			'gui_OutputFcn', @SpotsToSurfacesDistances_OutputFcn, ...
			'gui_LayoutFcn', [] , ...
			'gui_Callback', []);
			if nargin && ischar(varargin{1})
			gui_State.gui_Callback = str2func(varargin{1});
			end

			if nargout
			[varargout{1:nargout}] = gui_mainfcn(gui_State, varargin{:});
			else
			gui_mainfcn(gui_State, varargin{:});
			end
			% End initialization code - DO NOT EDIT


			% --- Executes just before SpotsToSurfacesDistances is made visible.
			function SpotsToSurfacesDistances_OpeningFcn(hObject, eventdata, handles, varargin)
			% This function has no output args, see OutputFcn.
			% hObject handle to figure
			% eventdata reserved - to be defined in a future version of MATLAB
			% handles structure with handles and user data (see GUIDATA)
			% varargin command line arguments to SpotsToSurfacesDistances (see VARARGIN)

			% Choose default command line output for SpotsToSurfacesDistances
			handles.output = hObject;
			addpath('EasyXT');
			% Create the EasyXT instance
			XT = EasyXT;
			handles.XT = XT;


			% Pre-fill the fancy file name export
			filename = char(XT.ImarisApp.GetCurrentFileName);
			[pathstr,name,ext] = fileparts(filename);
			set(handles.txtFileName,'String', [pathstr 'Data_export.xls']);


			handles.timer = timer(...
			'ExecutionMode', 'fixedRate', ... % Run timer repeatedly
			'Period', 3, ... % Initial period is 1 sec.
			'TimerFcn', {@detectDistChannel, hObject}); % Specify callback


			% Update handles structure
			guidata(hObject, handles);
			start(handles.timer);

			% UIWAIT makes SpotsToSurfacesDistances wait for user response (see UIRESUME)
			% uiwait(handles.figure1);


			% --- Executes when user attempts to close figure1.
			function figure1_CloseRequestFcn(hObject, eventdata, handles)
			% hObject handle to figure1 (see GCBO)
			% eventdata reserved - to be defined in a future version of MATLAB
			% handles structure with handles and user data (see GUIDATA)

			% Necessary to provide this function to prevent timer callback
			% from causing an error after GUI code stops executing.
			% Before exiting, if the timer is running, stop it.
			if strcmp(get(handles.timer, 'Running'), 'on')
			stop(handles.timer);
			end
			% Destroy timer
			delete(handles.timer)
			% Destroy figure
			delete(hObject);

			function detectDistChannel(hObject, eventdata, hfigure)
			handles = guidata(hfigure);
			% Check channel
			XT = handles.XT;
			names = XT.GetChannelNames();
			found=false;
			ch =0;
			for i=1:length(names)
			distCh = (regexp(names{i}, 'Distance to .*'));
			if ~isempty(distCh)
			found = true;
			ch = i;
			end
			end
			if found
			set(handles.txtDistanceChannel, 'String', ch);
			else
			set(handles.txtDistanceChannel, 'String', 'Unset');
			end



			% --- Outputs from this function are returned to the command line.
			function varargout = SpotsToSurfacesDistances_OutputFcn(hObject, eventdata, handles)
			% varargout cell array for returning output args (see VARARGOUT);
			% hObject handle to figure
			% eventdata reserved - to be defined in a future version of MATLAB
			% handles structure with handles and user data (see GUIDATA)

			% Get default command line output from handles structure
			varargout{1} = handles.output;


			% --- Executes on button press in btnDetectNuclei.
			function btnDetectNuclei_Callback(hObject, eventdata, handles)
			% hObject handle to btnDetectNuclei (see GCBO)
			% eventdata reserved - to be defined in a future version of MATLAB
			% handles structure with handles and user data (see GUIDATA)

			XT = handles.XT;

			% Get the channel to create the surface in
			nuclearChannel = str2double(get(handles.nuclearChannel,'String'));

			% Gaussian smoothing value
			nuclearSmooth = str2double(get(handles.nuclearSmooth,'String'));

			% Threshold value
			isAutoSurfaceThr = get(handles.autoSurfaceThr, 'Value');
			if ~isAutoSurfaceThr
			nuclearThr = str2double(get(handles.nuclearThr, 'String'));
			else
			nuclearThr = 0;
			end

			nuclearFilterValue = str2double(get(handles.nuclearVoxelThr,'String'));

			% Surface filter, just pick a big one.
			nuclearFilter = ['"Number of Voxels" above ' num2str(nuclearFilterValue) ' "Distance to Image Border XYZ" above 0.030 um'];

			% Give it a good name.
			surfaceName = 'Nuclear Surfaces';

			% Use EasyXT to detect the surface
			surface = XT.DetectSurfaces(nuclearChannel, ...
			'Smoothing', nuclearSmooth, ...
			'Threshold', nuclearThr, ... % 0 denotes auto threshold
			'Filter', nuclearFilter, ...
			'Seed Diameter', 10, ...
			'Name', surfaceName);
			% Add it to the Imaris Scene.
			XT.AddToScene(surface);



			% --- Executes on button press in btnDetectSpots.
			function btnDetectSpots_Callback(hObject, eventdata, handles)
			% hObject handle to btnDetectSpots (see GCBO)
			% eventdata reserved - to be defined in a future version of MATLAB
			% handles structure with handles and user data (see GUIDATA)

			XT = handles.XT;

			% Get the channel we'll work on
			spotChannel = str2double(get(handles.spotChannel,'String'));

			isSpotQualityAuto = get(handles.autoSpotQuality, 'Value');
			isSpotRegionGrowingAuto = get(handles.autoSpotRegionGrowing, 'Value');

			% Get the diameter of the spots
			spotXY = str2double(get(handles.spotSizeXY,'String'));
			spotZ = str2double(get(handles.spotSizeZ,'String'));



			% Get the quality chosen
			spotQuality = get(handles.spotQualityThr,'String');

			% Get the Region Growing Threshold chosen
			spotRegGrowingThr = str2double(get(handles.spotRegionGrowingThr,'String'));


			% Set the spot quality. If it's not set, use Imaris' auto quality.
			if isSpotQualityAuto
			spotFilter='"Quality" above automatic threshold';
			else
			spotFilter=sprintf('"Quality" above %d', str2double(spotQuality));
			end

			% Set the spot Region Growing Threshold. If it's not set, use Imaris' auto.
			if isSpotRegionGrowingAuto
			spotRegGrowingThr='Auto';
			end
			% Need to detect spots from the new channel we previously created
			% TODO: If it's Detect elliptical spots, we'll need to change the function
			newSpots = XT.DetectSpots(spotChannel, ...
			'Diameter XY', spotXY, ...
			'Diameter Z', spotZ, ...
			'Spots Filter', spotFilter, ...
			'Region Growing', true, ...
			'Diameter From Volume', true, ...
			'Region Threshold', spotRegGrowingThr, ...
			'Region Local Contrast', true, ...
			'Name', ['Detected Spots from Channel ' num2str(spotChannel)]);

			XT.AddToScene(newSpots);

			% TODO Fix spot Ellipsoid detection




			% --- Executes on button press in btnDistanceTransform.
			function btnDistanceTransform_Callback(hObject, eventdata, handles)
			% hObject handle to btnDistanceTransform (see GCBO)
			% eventdata reserved - to be defined in a future version of MATLAB
			% handles structure with handles and user data (see GUIDATA)
			XT = handles.XT;
			% Get the surface object
			surfaceName = 'Nuclear Surfaces';

			% Convert the data to 32-bit
			XT.SetDataType('32-bit');

			%Select the surface
			XT.SelectObject('Name', surfaceName);
			% Perform EDT
			XT.RunXtension('XTDistanceTransform');
			set(handles.txtDistanceChannel, 'String', num2str(XT.GetSize('C')));


			% --- Executes on button press in btnFindSpotsInside.
			function btnFindSpotsInside_Callback(hObject, eventdata, handles)
			% hObject handle to btnFindSpotsInside (see GCBO)
			% eventdata reserved - to be defined in a future version of MATLAB
			% handles structure with handles and user data (see GUIDATA)

			XT = handles.XT;

			%Select the spots
			XT.SelectObject('Type', 'Spots');

			% Split into surface objects XTension
			XT.RunXtension('XTSpotsSplitIntoSurfaceObjects');


			set(handles.txtDistanceChannel, 'String', num2str(XT.GetSize('C')));


			% --- Executes on button press in btnExport.
			function btnExport_Callback(hObject, eventdata, handles)
			% hObject handle to btnExport (see GCBO)
			% eventdata reserved - to be defined in a future version of MATLAB
			% handles structure with handles and user data (see GUIDATA)

			XT = handles.XT;
			% Distance Channel
			distChannel = str2double(get(handles.txtDistanceChannel, 'String'));

			if strcmp(distChannel, 'Unset')
			errordlg('The Distance Transform channel is not set. Aborting...');
			end

			% Excel File name
			[xlsPath, xlsName, xlsExt] = fileparts(get(handles.txtFileName, 'String'));

			% Image name
			[imagePath, imageName, imgExt] = fileparts(char(handles.XT.ImarisApp.GetCurrentFileName));

			% Condition Name
			condition = get(handles.txtConditionName, 'String');

			% Replicate
			replicate = str2num(get(handles.txtReplicate, 'String'));

			% Get the statistics for each object in the "Spots Inside Surfaces"
			% Find the first folder
			% Here we expect the first folder
			spotsFolder = XT.GetObject('Type', 'Group');

			% Go through each spot object
			nSurfaces = spotsFolder.GetNumberOfChildren;

			% Get the surface object
			surfaceName = 'Nuclear Surfaces';

			surface = XT.GetObject('Name',(surfaceName));

			surfaceStats = XT.GetSelectedStatistics(surface, 'Intensity Max');
			chanIdx = find(strcmpi('Channel', surfaceStats.factorNames))

			% Make channel list
			channelList = str2num(cell2mat(surfaceStats.factors(:,chanIdx)));
			surfaceInd = find(channelList == distChannel);
			surfaceVal = surfaceStats.values(surfaceInd)

			xlsPath = get(handles.txtFileName, 'String');

			if exist(xlsPath, 'file') == 2
			xlsFile = fopen(xlsPath,'a');
			else
			xlsFile = fopen(xlsPath,'w');
			% Make first row
			fprintf(xlsFile, '%s; %s; %s; %s; %s; %s; %s\n', ...
			'Image Name', 'Condition', 'Replicate', ...
			'SurfaceID', 'Max Surface Distance', ...
			'Spot Distance', 'Norm Spot Distance' ...
			);
			end



			for i=1:nSurfaces

			spot = XT.GetObject('Type', 'Spots', 'Number', i, 'Parent', spotsFolder);
			XT.GetName(spot)

			spotStats = XT.GetSelectedStatistics(spot, 'Intensity Center');

			% Keep only the ones from the channel of interest.
			chanIdx = find(strcmpi('Channel', surfaceStats.factorNames))

			channelList = str2num(cell2mat(spotStats.factors(:,chanIdx)));

			spotInd = find(channelList == distChannel)
			spotVal = spotStats.values(spotInd);

			for j=1:size(spotInd,1)
			% Save everything to a csv file
			% Image Name, Condition, Replicate, Channel, SurfaceID, SurfaceValue
			% Spot Distance, NormDistance
			fprintf(xlsFile, '%s; %s; %d; %d; %f; %f; %f\n', ...
			imageName, condition, replicate, ...
			i, surfaceVal(i), ...
			spotVal(j), spotVal(j)/surfaceVal(i) ...
			);
			end
			end

			fclose(xlsFile);

			% --- Executes on button press in btnOpen.
			function btnOpen_Callback(hObject, eventdata, handles)
			% hObject handle to btnOpen (see GCBO)
			% eventdata reserved - to be defined in a future version of MATLAB
			% handles structure with handles and user data (see GUIDATA)

			[FileName,PathName,FilterIndex] = uiputfile('*.csv','Select File To Save Data');

			set(handles.txtFileName, 'String', [PathName FileName]);

			if exist([PathName FileName], 'file') == 2
			warndlg(sprintf('The file %s already exists!\nData will be appended.',FileName ) );
			end

			%%%%%%%%%%%%%%%%%%%%%%%%%%%% Unused Functions %%%%%%%%%%%%%%%%%%%%%%%%%%%%

			function txtConditionName_Callback(hObject, eventdata, handles)
			% hObject handle to txtConditionName (see GCBO)
			% eventdata reserved - to be defined in a future version of MATLAB
			% handles structure with handles and user data (see GUIDATA)

			% Hints: get(hObject,'String') returns contents of txtConditionName as text
			% str2double(get(hObject,'String')) returns contents of txtConditionName as a double


			% --- Executes during object creation, after setting all properties.
			function txtConditionName_CreateFcn(hObject, eventdata, handles)
			% hObject handle to txtConditionName (see GCBO)
			% eventdata reserved - to be defined in a future version of MATLAB
			% handles empty - handles not created until after all CreateFcns called

			% Hint: edit controls usually have a white background on Windows.
			% See ISPC and COMPUTER.
			if ispc && isequal(get(hObject,'BackgroundColor'), get(0,'defaultUicontrolBackgroundColor'))
			set(hObject,'BackgroundColor','white');
			end



			function txtReplicate_Callback(hObject, eventdata, handles)
			% hObject handle to txtReplicate (see GCBO)
			% eventdata reserved - to be defined in a future version of MATLAB
			% handles structure with handles and user data (see GUIDATA)

			% Hints: get(hObject,'String') returns contents of txtReplicate as text
			% str2double(get(hObject,'String')) returns contents of txtReplicate as a double


			% --- Executes during object creation, after setting all properties.
			function txtReplicate_CreateFcn(hObject, eventdata, handles)
			% hObject handle to txtReplicate (see GCBO)
			% eventdata reserved - to be defined in a future version of MATLAB
			% handles empty - handles not created until after all CreateFcns called

			% Hint: edit controls usually have a white background on Windows.
			% See ISPC and COMPUTER.
			if ispc && isequal(get(hObject,'BackgroundColor'), get(0,'defaultUicontrolBackgroundColor'))
			set(hObject,'BackgroundColor','white');
			end


			% --- Executes on button press in checkAppend.
			function checkAppend_Callback(hObject, eventdata, handles)
			% hObject handle to checkAppend (see GCBO)
			% eventdata reserved - to be defined in a future version of MATLAB
			% handles structure with handles and user data (see GUIDATA)

			% Hint: get(hObject,'Value') returns toggle state of checkAppend



			function txtFileName_Callback(hObject, eventdata, handles)
			% hObject handle to txtFileName (see GCBO)
			% eventdata reserved - to be defined in a future version of MATLAB
			% handles structure with handles and user data (see GUIDATA)

			% Hints: get(hObject,'String') returns contents of txtFileName as text
			% str2double(get(hObject,'String')) returns contents of txtFileName as a double


			% --- Executes during object creation, after setting all properties.
			function txtFileName_CreateFcn(hObject, eventdata, handles)
			% hObject handle to txtFileName (see GCBO)
			% eventdata reserved - to be defined in a future version of MATLAB
			% handles empty - handles not created until after all CreateFcns called

			% Hint: edit controls usually have a white background on Windows.
			% See ISPC and COMPUTER.
			if ispc && isequal(get(hObject,'BackgroundColor'), get(0,'defaultUicontrolBackgroundColor'))
			set(hObject,'BackgroundColor','white');
			end


			function spotSizeXY_Callback(hObject, eventdata, handles)
			% hObject handle to spotSizeXY (see GCBO)
			% eventdata reserved - to be defined in a future version of MATLAB
			% handles structure with handles and user data (see GUIDATA)

			% Hints: get(hObject,'String') returns contents of spotSizeXY as text
			% str2double(get(hObject,'String')) returns contents of spotSizeXY as a double


			% --- Executes during object creation, after setting all properties.
			function spotSizeXY_CreateFcn(hObject, eventdata, handles)
			% hObject handle to spotSizeXY (see GCBO)
			% eventdata reserved - to be defined in a future version of MATLAB
			% handles empty - handles not created until after all CreateFcns called

			% Hint: edit controls usually have a white background on Windows.
			% See ISPC and COMPUTER.
			if ispc && isequal(get(hObject,'BackgroundColor'), get(0,'defaultUicontrolBackgroundColor'))
			set(hObject,'BackgroundColor','white');
			end



			function spotQualityThr_Callback(hObject, eventdata, handles)
			% hObject handle to spotQualityThr (see GCBO)
			% eventdata reserved - to be defined in a future version of MATLAB
			% handles structure with handles and user data (see GUIDATA)

			% Hints: get(hObject,'String') returns contents of spotQualityThr as text
			% str2double(get(hObject,'String')) returns contents of spotQualityThr as a double


			% --- Executes during object creation, after setting all properties.
			function spotQualityThr_CreateFcn(hObject, eventdata, handles)
			% hObject handle to spotQualityThr (see GCBO)
			% eventdata reserved - to be defined in a future version of MATLAB
			% handles empty - handles not created until after all CreateFcns called

			% Hint: edit controls usually have a white background on Windows.
			% See ISPC and COMPUTER.
			if ispc && isequal(get(hObject,'BackgroundColor'), get(0,'defaultUicontrolBackgroundColor'))
			set(hObject,'BackgroundColor','white');
			end



			function nuclearSmooth_Callback(hObject, eventdata, handles)
			% hObject handle to nuclearSmooth (see GCBO)
			% eventdata reserved - to be defined in a future version of MATLAB
			% handles structure with handles and user data (see GUIDATA)

			% Hints: get(hObject,'String') returns contents of nuclearSmooth as text
			% str2double(get(hObject,'String')) returns contents of nuclearSmooth as a double


			% --- Executes during object creation, after setting all properties.
			function nuclearSmooth_CreateFcn(hObject, eventdata, handles)
			% hObject handle to nuclearSmooth (see GCBO)
			% eventdata reserved - to be defined in a future version of MATLAB
			% handles empty - handles not created until after all CreateFcns called

			% Hint: edit controls usually have a white background on Windows.
			% See ISPC and COMPUTER.
			if ispc && isequal(get(hObject,'BackgroundColor'), get(0,'defaultUicontrolBackgroundColor'))
			set(hObject,'BackgroundColor','white');
			end



			function nuclearVoxelThr_Callback(hObject, eventdata, handles)
			% hObject handle to nuclearVoxelThr (see GCBO)
			% eventdata reserved - to be defined in a future version of MATLAB
			% handles structure with handles and user data (see GUIDATA)

			% Hints: get(hObject,'String') returns contents of nuclearVoxelThr as text
			% str2double(get(hObject,'String')) returns contents of nuclearVoxelThr as a double


			% --- Executes during object creation, after setting all properties.
			function nuclearVoxelThr_CreateFcn(hObject, eventdata, handles)
			% hObject handle to nuclearVoxelThr (see GCBO)
			% eventdata reserved - to be defined in a future version of MATLAB
			% handles empty - handles not created until after all CreateFcns called

			% Hint: edit controls usually have a white background on Windows.
			% See ISPC and COMPUTER.
			if ispc && isequal(get(hObject,'BackgroundColor'), get(0,'defaultUicontrolBackgroundColor'))
			set(hObject,'BackgroundColor','white');
			end



			function spotRegionGrowingThr_Callback(hObject, eventdata, handles)
			% hObject handle to spotRegionGrowingThr (see GCBO)
			% eventdata reserved - to be defined in a future version of MATLAB
			% handles structure with handles and user data (see GUIDATA)

			% Hints: get(hObject,'String') returns contents of spotRegionGrowingThr as text
			% str2double(get(hObject,'String')) returns contents of spotRegionGrowingThr as a double


			% --- Executes during object creation, after setting all properties.
			function spotRegionGrowingThr_CreateFcn(hObject, eventdata, handles)
			% hObject handle to spotRegionGrowingThr (see GCBO)
			% eventdata reserved - to be defined in a future version of MATLAB
			% handles empty - handles not created until after all CreateFcns called

			% Hint: edit controls usually have a white background on Windows.
			% See ISPC and COMPUTER.
			if ispc && isequal(get(hObject,'BackgroundColor'), get(0,'defaultUicontrolBackgroundColor'))
			set(hObject,'BackgroundColor','white');
			end



			function nuclearChannel_Callback(hObject, eventdata, handles)
			% hObject handle to nuclearChannel (see GCBO)
			% eventdata reserved - to be defined in a future version of MATLAB
			% handles structure with handles and user data (see GUIDATA)

			% Hints: get(hObject,'String') returns contents of nuclearChannel as text
			% str2double(get(hObject,'String')) returns contents of nuclearChannel as a double


			% --- Executes during object creation, after setting all properties.
			function nuclearChannel_CreateFcn(hObject, eventdata, handles)
			% hObject handle to nuclearChannel (see GCBO)
			% eventdata reserved - to be defined in a future version of MATLAB
			% handles empty - handles not created until after all CreateFcns called

			% Hint: edit controls usually have a white background on Windows.
			% See ISPC and COMPUTER.
			if ispc && isequal(get(hObject,'BackgroundColor'), get(0,'defaultUicontrolBackgroundColor'))
			set(hObject,'BackgroundColor','white');
			end



			function spotChannel_Callback(hObject, eventdata, handles)
			% hObject handle to spotChannel (see GCBO)
			% eventdata reserved - to be defined in a future version of MATLAB
			% handles structure with handles and user data (see GUIDATA)

			% Hints: get(hObject,'String') returns contents of spotChannel as text
			% str2double(get(hObject,'String')) returns contents of spotChannel as a double


			% --- Executes during object creation, after setting all properties.
			function spotChannel_CreateFcn(hObject, eventdata, handles)
			% hObject handle to spotChannel (see GCBO)
			% eventdata reserved - to be defined in a future version of MATLAB
			% handles empty - handles not created until after all CreateFcns called

			% Hint: edit controls usually have a white background on Windows.
			% See ISPC and COMPUTER.
			if ispc && isequal(get(hObject,'BackgroundColor'), get(0,'defaultUicontrolBackgroundColor'))
			set(hObject,'BackgroundColor','white');
			end



			function nuclearThr_Callback(hObject, eventdata, handles)
			% hObject handle to nuclearThr (see GCBO)
			% eventdata reserved - to be defined in a future version of MATLAB
			% handles structure with handles and user data (see GUIDATA)

			% Hints: get(hObject,'String') returns contents of nuclearThr as text
			% str2double(get(hObject,'String')) returns contents of nuclearThr as a double


			% --- Executes during object creation, after setting all properties.
			function nuclearThr_CreateFcn(hObject, eventdata, handles)
			% hObject handle to nuclearThr (see GCBO)
			% eventdata reserved - to be defined in a future version of MATLAB
			% handles empty - handles not created until after all CreateFcns called

			% Hint: edit controls usually have a white background on Windows.
			% See ISPC and COMPUTER.
			if ispc && isequal(get(hObject,'BackgroundColor'), get(0,'defaultUicontrolBackgroundColor'))
			set(hObject,'BackgroundColor','white');
			end


			% --- Executes on button press in autoSurfaceThr.
			function autoSurfaceThr_Callback(hObject, eventdata, handles)
			% hObject handle to autoSurfaceThr (see GCBO)
			% eventdata reserved - to be defined in a future version of MATLAB
			% handles structure with handles and user data (see GUIDATA)

			% Hint: get(hObject,'Value') returns toggle state of autoSurfaceThr


			% --- Executes on button press in autoSurfaceQuality.
			function autoSurfaceQuality_Callback(hObject, eventdata, handles)
			% hObject handle to autoSurfaceQuality (see GCBO)
			% eventdata reserved - to be defined in a future version of MATLAB
			% handles structure with handles and user data (see GUIDATA)

			% Hint: get(hObject,'Value') returns toggle state of autoSurfaceQuality


			% --- Executes on button press in autoSpotQuality.
			function autoSpotQuality_Callback(hObject, eventdata, handles)
			% hObject handle to autoSpotQuality (see GCBO)
			% eventdata reserved - to be defined in a future version of MATLAB
			% handles structure with handles and user data (see GUIDATA)

			% Hint: get(hObject,'Value') returns toggle state of autoSpotQuality


			% --- Executes on button press in autoSpotRegionGrowing.
			function autoSpotRegionGrowing_Callback(hObject, eventdata, handles)
			% hObject handle to autoSpotRegionGrowing (see GCBO)
			% eventdata reserved - to be defined in a future version of MATLAB
			% handles structure with handles and user data (see GUIDATA)

			% Hint: get(hObject,'Value') returns toggle state of autoSpotRegionGrowing



			function txtDistanceChannel_Callback(hObject, eventdata, handles)
			% hObject handle to txtDistanceChannel (see GCBO)
			% eventdata reserved - to be defined in a future version of MATLAB
			% handles structure with handles and user data (see GUIDATA)

			% Hints: get(hObject,'String') returns contents of txtDistanceChannel as text
			% str2double(get(hObject,'String')) returns contents of txtDistanceChannel as a double


			% --- Executes during object creation, after setting all properties.
			function txtDistanceChannel_CreateFcn(hObject, eventdata, handles)
			% hObject handle to txtDistanceChannel (see GCBO)
			% eventdata reserved - to be defined in a future version of MATLAB
			% handles empty - handles not created until after all CreateFcns called

			% Hint: edit controls usually have a white background on Windows.
			% See ISPC and COMPUTER.
			if ispc && isequal(get(hObject,'BackgroundColor'), get(0,'defaultUicontrolBackgroundColor'))
			set(hObject,'BackgroundColor','white');
			end



			function spotSizeZ_Callback(hObject, eventdata, handles)
			% hObject handle to spotSizeZ (see GCBO)
			% eventdata reserved - to be defined in a future version of MATLAB
			% handles structure with handles and user data (see GUIDATA)

			% Hints: get(hObject,'String') returns contents of spotSizeZ as text
			% str2double(get(hObject,'String')) returns contents of spotSizeZ as a double


			% --- Executes during object creation, after setting all properties.
			function spotSizeZ_CreateFcn(hObject, eventdata, handles)
			% hObject handle to spotSizeZ (see GCBO)
			% eventdata reserved - to be defined in a future version of MATLAB
			% handles empty - handles not created until after all CreateFcns called

			% Hint: edit controls usually have a white background on Windows.
			% See ISPC and COMPUTER.
			if ispc && isequal(get(hObject,'BackgroundColor'), get(0,'defaultUicontrolBackgroundColor'))
			set(hObject,'BackgroundColor','white');
			end


			% --- Executes on button press in autoSmooth.
			function autoSmooth_Callback(hObject, eventdata, handles)
			% hObject handle to autoSmooth (see GCBO)
			% eventdata reserved - to be defined in a future version of MATLAB
			% handles structure with handles and user data (see GUIDATA)

			% Hint: get(hObject,'Value') returns toggle state of autoSmooth

xt-distance-maps/SpotsToSurfacesDistances.mcf97da8f5d33spot-count

SpotsToSurfacesDistances.mView Options

xt-distance-maps/SpotsToSurfacesDistances.m
cf97da8f5d33spot-count

SpotsToSurfacesDistances.m
View Options