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MTSleepScorer.m
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MTSleepScorer.m
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classdef MTSleepScorer < handle
% MTSleepScorer Interactive GUI for scoring and viewing sleep EEG data
%
% Usage:
% obj = MTSleepScorer()
%
% Input:
% varargin: Additional input arguments
%
% Description:
% The MTSleepScorer class provides functionality for scoring sleep stages in EEG data.
%
% Properties (Access = public):
% - event_marker: EventMarker object for marking events on the spectrogram
% - numstages: Number of sleep stages (3 or 5)
% - data_path: Path to data file (default: loading default)
% - save_path: Path for saving scored data (default: saving default)
% - file_name: Current data file
% - save_fname: File name for saving scored data
% - initials: Scorer's initials
% - mainfig_h: Main figure handle
% - axes_main: Main figure axes array
%
% Public Methods (Access = public):
% - MTSleepScorer: Constructor method. Calls the initialization script
%
% Keyboard Shortcuts:
% - left/right arrow (scroll wheel): Pan screen-width
% - up/down arrow (shift + scroll wheel): Zoom
% - z: Set zoom window size
% - ,/.: Cycle through electrodes
% - w/5: Add Wake stage
% - r/4: Add REM stage
% - n(1/2/3): Add NREM stage
% - x: Automatically detect artifacts
% - a: Add Artifact event
% - u: Toggle slice power spectrum
% - d: Create 3D popout of region
% - h: Toggle this help window
% - q: Quit the program
%
% Example:
% %Initialize the MTSleepScorer class and load EEG data:
% obj = MTSleepScorer();
%
% See also EventMarker
%
% Copyright 2023 Michael J. Prerau Laboratory. - http://www.sleepEEG.org
%********************************************************************
%%%%%%%%%%%%%%%% public properties %%%%%%%%%%%%%%%%%%
properties (Access = public)
%Replace handling with Event Marker
event_marker;
%Number of stages (3 or 5)
numstages;
%File info
data_path; %Loading default
save_path; %Saving Default
file_name; %Current file
save_fname; %Scoring save file
%Scorer initials
initials;
%Main figure
mainfig_h;
%Main figure axes array
axes_main;
end
%%%%%%%%%%%%%%%% private properties %%%%%%%%%%%%%%%%%%
properties (Access = private)
%Loaded data
channel_labels;
curr_channel;
num_channels;
Fs;
data;
%Spectrogram properties
stimes;
sfreqs;
scube;
spect_title_h;
curr_resolution = 1;
%Spectrogram parameters
mt_params;
mt_param_scales;
%Message textboxes
msg_textbox_h;
zoom_textbox_h;
title_textbox_h;
%Popup handles
popfig_h;
popfigax_h;
%Clim handles
clim_sliders_h;
clim_editboxes_h;
autoscale_h;
%Help window handles
helpfig_h;
%Hypnogram graphics objects
zoomrect;
hypnoline;
%Spectrogram graphics object
spect_h;
%Channel title
h_spect_title;
%Slider objects
zoom_slider;
pan_slider;
%Callbacks
WindowButtonDownFcn
WindowButtonMotionFcn
WindowButtonUpFcn
WindowKeyPressFcn
WindowKeyReleaseFcn
WindowScrollWheelFcn
end
%%%%%%%%%%%%%%% public methods %%%%%%%%%%%%%%%%%%%%%%
methods (Access = public)
%***********************************************
% CONSTRUCTOR METHOD
%***********************************************
function obj = MTSleepScorer(varargin)
%Run the initialization script
MT_scoring_init_script;
%Set default paths
obj.data_path = data_path;
obj.save_path = save_path;
%Set staging MT parameters
obj.mt_params = mt_params;
obj.mt_param_scales = mt_param_scales;
%Load data
obj.load_data;
%Set up initial figure
obj.init_fig;
end
end
methods (Access = private)
%************************************************************
% LOAD DATA
%************************************************************
function load_data(obj)
%---------------------------------------------------------
% SELECT DATA AND LOAD
%---------------------------------------------------------
%Close all other figures
c=get(0,'children');
if ~isempty(c)
for i=1:length(c)
delete(c(i));
end
end
clc;
%Get the initials of the scorer to be used for saving
prompt={'Enter scorer initials:';};
name='Enter Scorer Initials';
numlines=1;
defaultanswer={''};
answer=inputdlg(prompt,name,numlines,defaultanswer);
%Return if no answer
if isempty(answer)
return;
end
obj.initials=answer{1};
if ~exist(obj.data_path,'dir')
error('Invalid data path');
end
if ~exist(obj.save_path,'dir')
error('Invalid save path');
end
%Let the user select the data file to load
d=dir(fullfile(obj.data_path,'*.edf'));
str = sort({d.name});
s=listdlg('PromptString','Select a file:',...
'SelectionMode','single',...
'ListString',str);
obj.file_name = str{s};
%Load the file
[~, shdr] = blockEdfLoad(fullfile(obj.data_path,obj.file_name));
labels = {shdr.signal_labels};
s=listdlg('PromptString','Select channels to load:',...
'SelectionMode','multiple',...
'ListString',labels);
h=msgbox(['Loading ' obj.file_name '...']);
%Load EDF
[hdr, shdr, obj.data] = blockEdfLoad(fullfile(obj.data_path,obj.file_name),labels(s));
obj.Fs = hdr.samplingfrequency;
obj.channel_labels = {shdr.signal_labels};
obj.num_channels = length(obj.Fs);
close(h);
res_name = {'full night', 'stage', 'microevent'};
%Make sure to start parallel pool if available
if license('test','distrib_computing_toolbox')
gcp;
end
%Loop over resolutions
for res = 1:length(obj.mt_params)
params = obj.mt_params{res};
f = waitbar(0,['Computing ' res_name{res} ' multitaper spectrograms...']);
%Find channels that need to be rejected because of a different
%duration
skipped_chans = false(1, obj.num_channels);
%Compute MTS for each channel
for ii = 1:obj.num_channels
%Preallocate first time around
if ii == 1
[spect,obj.stimes{res},obj.sfreqs{res}] = multitaper_spectrogram_mex(obj.data{ii}, obj.Fs(ii), [params.frequency_range(1) min(params.frequency_range(2), obj.Fs(ii)/2)], ...
params.taper_params, params.window_params,params.min_nfft, params.detrend_opt, params.weighting, false, false);
spect_size = size(spect);
obj.scube{res} = zeros([obj.num_channels, spect_size]);
else
spect = multitaper_spectrogram_mex(obj.data{ii}, obj.Fs(ii), [params.frequency_range(1) min(params.frequency_range(2), obj.Fs(ii)/2)], ...
params.taper_params, params.window_params,params.min_nfft, params.detrend_opt, params.weighting, false, false);
end
%Check for channels of different duration
if ~any(size(spect) - spect_size)
obj.scube{res}(ii,:,:) = pow2db(spect);
else
skipped_chans(ii) = true;
end
waitbar(ii/obj.num_channels,f,['Computing ' res_name{res} ' multitaper spectrograms...']);
end
close(f);
%Remove skipped channels
if any(skipped_chans)
h = msgbox(['Skipped channels with different duration: ' sprintf('"%s" ', obj.channel_labels{skipped_chans})]);
pause(2);
if ishandle(h)
close(h);
end
obj.scube{res} = obj.scube{res}(~skipped_chans,:,:);
obj.num_channels = sum(~skipped_chans);
obj.channel_labels = obj.channel_labels(~skipped_chans);
end
end
obj.curr_channel = 1;
%UPDATE TO FIX DIRECTORY
obj.save_fname=fullfile(obj.save_path,['/scored_' obj.initials '_' obj.file_name(1:end-4) '.mat']);
obj.numstages=3;
end
%---------------------------------------------------------
% SET UP MAIN FIGURE
%---------------------------------------------------------
function init_fig(obj)
%Set up the figure (hide until complete)
obj.mainfig_h=figure('units','normalized','position',[0 0 .6 .6],'units','normalized',...
'color','w','KeyPressFcn',@obj.handle_keys,'visible','off','windowbuttonupfcn',@obj.save_scoring);
%Make axes
obj.axes_main(1) = axes('Parent',obj.mainfig_h,'Position',[0.05 0.82 0.9 0.1]); %Hypnogram
obj.axes_main(2) = axes('Parent',obj.mainfig_h,'Position',[0.05 0.1 0.9 0.64]); %Spectrogram
%Create text boxes
obj.msg_textbox_h=annotation(obj.mainfig_h,'textbox',...
[0.7 0.006 0.7 0.02],...
'String',{' '},...
'FontSize',14,'HorizontalAlignment','right',...
'FitBoxToText','off',...
'LineStyle','none');
obj.zoom_textbox_h=annotation(obj.mainfig_h,'textbox',...
[0.02 0.87 0.19 0.1],...
'String',{' '},...
'FontSize',14,...
'FitBoxToText','off',...
'LineStyle','none');
obj.title_textbox_h=annotation(obj.mainfig_h,'textbox',...
[0.43 0.957 0.12 0.026],...
'String',strrep(obj.file_name(1:end-4),'_','-'),...
'FontWeight','bold',...
'FontSize',24,...
'FitBoxToText','off',...
'LineStyle','none');
% ---------------------------------------------------------
% PLOT INITIAL DATA
% ---------------------------------------------------------
%Plot the hypnogram
axes(obj.axes_main(1));
if obj.numstages==3
set(obj.axes_main(1),'ylim',[2.5 6.5],'ytick',3:6,'yticklabel',{'NREM','REM','Wake','Art.'},'xtick',[]);
else
set(obj.axes_main(1),'ylim',[.5 5.5],'ytick',1:5,'yticklabel',{'N3','N2','N1','REM','Wake','Art.'},'xtick',[]);
end
obj.h_spect_title=title('');
xlim(obj.stimes{obj.curr_resolution}([1 end]));
hold on
%Create a blank hypnogram
yl = ylim(obj.axes_main(1));
obj.zoomrect=fill([0 obj.stimes{obj.curr_resolution}(end) obj.stimes{obj.curr_resolution}(end) 0],[yl(1) yl(1) yl(2) yl(2)],[.9 .9 1],'edgecolor','none');
obj.hypnoline=plot(obj.stimes{obj.curr_resolution}([1 end]),[0 0],'color','k','linewidth',2);
%Plot the initial spectrogram
axes(obj.axes_main(2));
obj.spect_h=imagesc(obj.stimes{obj.curr_resolution}, obj.sfreqs{obj.curr_resolution}, squeeze(obj.scube{obj.curr_resolution}(obj.curr_channel,:,:)));
axis xy;
climscale;
topcolorbar(.1,.01,.03);
colormap(jet(2^10));
ylabel('Frequency (Hz)');
obj.spect_title_h = title(['Sleep Spectrogram: ' obj.channel_labels(obj.curr_channel)],'FontWeight','bold','FontSize',18,'units','normalized');
obj.spect_title_h.Position(2) = obj.spect_title_h.Position(2) + .05;
%Plot xticks in HH:MM:SS every 30 min
min_step = 30*60;
set(obj.axes_main(2),'xtick',0:min_step:obj.stimes{obj.curr_resolution}(end),'xticklabel',datestr((0:min_step:obj.stimes{obj.curr_resolution}(end))*datefact,'HH:MM:SS')); %#ok<*DATST>
%Link to main figure
obj.mainfig_h.UserData=obj.mainfig_h;
%---------------------------------------------------------
% ADD EVENT MARKER
%---------------------------------------------------------
%
%Call event marker class to mark on the image
%obj = EventMarker(event_axis, xbounds, ybounds, event_types, event_list, line_colors, font_size, motioncallback)
axes(obj.axes_main(2));
em=EventMarker(obj.axes_main(2),xlim(obj.axes_main(2)), ylim(obj.axes_main(2)), [], [], [], 15, @obj.EM_callback);
%obj.add_event_type(EventObject(<event type name>, <event ID>, <region? vs. point>, <bounded to yaxis?>)
if obj.numstages == 3
em.add_event_type(EventObject('W',5,false,false));
em.add_event_type(EventObject('R',4,false,false));
em.add_event_type(EventObject('N',3,false,false));
em.add_event_type(EventObject('A',6,true,true));
em.add_event_type(EventObject([],7,true,false));
elseif obj.numstages == 5
em.add_event_type(EventObject('W',5,false,false));
em.add_event_type(EventObject('R',4,false,false));
em.add_event_type(EventObject('N1',3,false,false));
em.add_event_type(EventObject('N2',2,false,false));
em.add_event_type(EventObject('N3',1,false,false));
em.add_event_type(EventObject('A',6,true,true));
em.add_event_type(EventObject([],7,true,false));
else
error('Must have either 3 or 5 stages');
end
%Add to main object
obj.event_marker = em;
%Load scoring if save file exists
if exist(obj.save_fname,'file')
obj.event_marker.load(obj.save_fname);
else
%Add a default event at time 0
obj.event_marker.mark_event(5, 0);
end
%---------------------------------------------------------
% CLIM SLIDERS
%---------------------------------------------------------
%Create the sliders
cx = caxis(obj.axes_main(2));
clim_bound=(cx(2)-cx(1))/2-.0001;
minslider_h = uicontrol(obj.mainfig_h,'units','normalized','Style','slider',...
'Max',cx(1)+clim_bound,'Min',cx(1)-clim_bound,'Value',cx(1),...
'SliderStep',[0.05 0.2],...
'Position',[0.8979 0.9653 0.0552 0.0217]);
maxslider_h = uicontrol(obj.mainfig_h,'units','normalized','Style','slider',...
'Max',cx(2)+clim_bound,'Min',cx(2)-clim_bound,'Value',cx(2),...
'SliderStep',[0.05 0.2],...
'Position',[0.8979 0.94 0.0552 0.0217]);
obj.clim_sliders_h=[maxslider_h minslider_h];
%Create the edit boxes for manual entry of parameter values
minedit_h=uicontrol(obj.mainfig_h,'units','normalized','Style','edit','string',get(maxslider_h,'value'),'Position',[0.9542 0.9425 0.0352 0.0217],'backgroundcolor',get(obj.mainfig_h,'color'),'horizontalalign','right');
maxedit_h=uicontrol(obj.mainfig_h,'units','normalized','Style','edit','string',get(minslider_h,'value'),'Position',[0.9542 0.9679 0.0352 0.0217],'backgroundcolor',get(obj.mainfig_h,'color'),'horizontalalign','right');
obj.autoscale_h = uicontrol(obj.mainfig_h,'units','normalized','string','Autoscale','Position',[0.9542 0.9225 0.0352 0.0217],'backgroundcolor',...
get(obj.mainfig_h,'color'),'horizontalalign','center','callback',@obj.clim_autoscale);
%Array of all edit box handles
obj.clim_editboxes_h=[maxedit_h minedit_h];
%Set continuous callbaxs for the sliders
addlistener(maxslider_h,'ContinuousValueChange',@obj.clim_slider_update);
addlistener(minslider_h,'ContinuousValueChange',@obj.clim_slider_update);
%Make Labels
uicontrol(obj.mainfig_h,'units','normalized','Style','text','string','Clim Min','Position',[0.8637 0.9718 0.0352 0.0158],'backgroundcolor',get(obj.mainfig_h,'color'),'horizontalalign','right');
uicontrol(obj.mainfig_h,'units','normalized','Style','text','string','Clim Max','Position', [0.8637 0.9479 0.0352 0.0158],'backgroundcolor',get(obj.mainfig_h,'color'),'horizontalalign','right');
%Set the edit box callbacks
set(maxedit_h,'callback',@obj.clim_edit_update);
set(minedit_h,'callback',@obj.clim_edit_update);
%---------------------------------------------------------
% SET UP THE ZOOM/PAN SLIDERS
%---------------------------------------------------------
[obj.zoom_slider, ~]=scrollzoompan(obj.axes_main(2),'x', @obj.update_zoom, @obj.update_pan);%, bounds);
set(obj.zoom_slider,'min',10);
%---------------------------------------------------------
% SLICE POPUP WINDOW
%---------------------------------------------------------
%Activate slice popups
[obj.popfig_h, obj.popfigax_h]=slicepopup(obj.mainfig_h, obj.axes_main(2), obj.stimes{obj.curr_resolution}, obj.sfreqs{obj.curr_resolution}, [], 'Time (s)','Frequency (Hz)','Power (dB)', 'y', 0);
%Adjust size and axes
set(obj.popfig_h,'units','normalized','position',[ 0 0.7 .8 .2],'color','w','CloseRequestFcn',@obj.toggle_visible,'WindowKeyPressFcn',{@obj.toggle_with_key,'u'});
set(obj.popfigax_h,'xlim',[.5 20],'ylim',caxis(obj.axes_main(2)));
obj.update_hypno([]);
obj.update_timetext;
set(obj.mainfig_h,'CloseRequestFcn',@obj.close_all);
obj.mainfig_h.Visible = 'on';
%---------------------------------------------------------
% HELP WINDOW
%---------------------------------------------------------
obj.display_help;
end
%************************************************************
% HELP FUNCTION
%************************************************************
function display_help(obj)
obj.helpfig_h=figure('units','normalized','position',[0 0.7 0.13 0.25],'color','w','name','EEG Viewer','menubar','none');
axes('units','normalized','position',[0 0 1 .8]);
text('position',[.05 .7],'string',...
{'Keyboard Shortcuts:',...
'',...
' left/right arrow (scroll wheel): Pan screen-width'...
' up/down arrow (shift + scroll wheel): Zoom'...
' z: Set zoom window size'...
' ,/.: Cycle through electrodes'...
'',...
' w/5: Add Wake stage'...
' r/4: Add REM stage'...
' n(1/2/3): Add NREM stage'...
''...
' x: Automatically detect artifacts'...
' a: Add Artifact event'...
'',...
' u: Toggle slice power spectrum'...
' d: Create 3D popout of region'...
'',...
' h: Toggle this help window'...
' q: Quit the program'...
},'fontsize',12)
axis off;
set(obj.helpfig_h,'CloseRequestFcn',@obj.toggle_visible,'WindowKeyPressFcn',{@obj.toggle_with_key,'h'});
obj.helpfig_h.UserData=obj.mainfig_h;
end
%************************************************************
% UPDATE DURING ZOOM
%************************************************************
function update_zoom(obj)
obj.update_timetext;
obj.update_zoomrect;
obj.update_resolution;
end
%************************************************************
% UPDATE THE DURING PAN
%************************************************************
function update_pan(obj)
obj.update_timetext;
obj.update_zoomrect;
end
%************************************************************
% FUNCTION DURING EVENT MARKER MOVEMENT
%************************************************************
function EM_callback(obj, emarker_h, varargin)
%Grab the current position of the sliding event marker
if strcmpi(class(emarker_h),'images.roi.Line') || strcmpi(class(emarker_h),'images.roi.Rectangle')
emarker_pos = emarker_h.Position;
else
emarker_pos = getPosition(emarker_h);
end
if obj.event_marker.event_list(obj.event_marker.selected_ind).region
event_time = [emarker_pos(1,1), emarker_pos(1,1)+emarker_pos(1,3)];
else
event_time = emarker_pos(1,1);
end
%Update the hypnogram
obj.update_hypno(event_time);
end
%************************************************************
% UPDATE THE TIME WINDOW TEXT WHEN THE LINES ARE MOVED
%************************************************************
function update_timetext(obj)
xl = xlim(obj.axes_main(2));
set(obj.zoom_textbox_h,'string',...
sprintf(['Time Range:\t\t\t' datestr(xl(1)*datefact,'HH:MM:SS') ' - ' datestr(xl(2)*datefact,'HH:MM:SS')...
'\nWindow Size:\t\t' datestr(diff(xl)*datefact,'HH:MM:SS')]));
%Update the xticks depending on the time range
x_range = diff(xl);
if x_range<5
min_step = .5;
elseif x_range<30
min_step = 1;
elseif x_range<120
min_step = 5;
elseif x_range<5*60
min_step = 30;
elseif x_range<10*60
min_step=60;
elseif x_range<30*60
min_step = 5*60;
elseif x_range<2*3600
min_step = 10*60;
elseif x_range<5*3600
min_step = 15*60;
else
min_step = 3600;
end
if x_range>10
set(obj.axes_main(2),'xtick',0:min_step:obj.stimes{obj.curr_resolution}(end),'xticklabel',datestr((0:min_step:obj.stimes{obj.curr_resolution}(end))*datefact,'HH:MM:SS')); %#ok<*DATST>
else
set(obj.axes_main(2),'xtick',0:min_step:obj.stimes{obj.curr_resolution}(end),'xticklabel',datestr((0:min_step:obj.stimes{obj.curr_resolution}(end))*datefact,'HH:MM:SS:FFF')); %#ok<*DATST>
end
end
%************************************************************
% UPDATE THE ZOOM RECTANGLE WHEN THE LINES ARE MOVED
%************************************************************
function update_zoomrect(obj)
xl = xlim(obj.axes_main(2));
set(obj.zoomrect,'xdata',[xl fliplr(xl)]);
end
%************************************************************
% UPDATE THE RESOLUTION OF THE SPECTROGRAM
%************************************************************
function update_resolution(obj)
xl = xlim(obj.axes_main(2));
dt = diff(xl);
for ii = 1:length(obj.mt_param_scales)
if obj.curr_resolution ~= ii && dt <= obj.mt_param_scales(ii) && dt>obj.mt_param_scales(ii+1)
obj.spect_h.CData=squeeze(obj.scube{ii}(obj.curr_channel,:,:));
obj.spect_h.XData = obj.stimes{ii};
obj.spect_h.YData = obj.sfreqs{ii};
obj.curr_resolution = ii;
end
end
set(obj.zoomrect,'xdata',[xl fliplr(xl)]);
end
%************************************************************
% UPDATE THE HYPNOGRAM WHEN THE LINES ARE MOVED
%************************************************************
function update_hypno(obj, event_time)
if isempty(event_time)
selected_stage = [];
selected_ind = [];
else
%Get selected stage
selected_ind = obj.event_marker.selected_ind;
selected_stage = obj.event_marker.event_list(selected_ind).type_ID;
end
%Get all the stage events and times
event_types = [obj.event_marker.event_list.type_ID];
stage_inds = event_types<6; %Pick only stages
stage_vals = event_types(stage_inds);
stage_times = arrayfun(@(x)x.time_bounds,obj.event_marker.event_list(stage_inds));
%Add an end point
stage_times = [stage_times length(obj.data{obj.curr_channel})/obj.Fs(obj.curr_channel)];
stage_vals = [stage_vals stage_vals(end)];
art_inds = event_types==6; %Pick only stages
if any(art_inds)
if selected_stage == 6
art_inds(selected_ind) = 0;
end
art_times = arrayfun(@(x)x.time_bounds',obj.event_marker.event_list(art_inds),'UniformOutput',false);
if selected_stage == 6
art_times = [art_times{:} event_time'];
else
art_times = [art_times{:}];
end
else
art_times = [];
end
if ~isempty(event_time)
%Return if not a stage time
if selected_stage~=6
%Find the original stage time
selected_time_old = obj.event_marker.event_list(selected_ind).obj_handle.XData(1);
%Find and update the time corresponding to the selected stage
selected_ind_new = stage_times == selected_time_old;
if any(selected_ind_new)
stage_times(selected_ind_new) = event_time;
end
end
end
if ~isempty(art_times)
%Find the proper end stage
stage_ends = interp1(stage_times,stage_vals,art_times(2,:),'previous');
%Delete the stages in the middle
for ii = 1:size(art_times,2)
delete_inds = stage_times>=art_times(1,ii) & stage_times<art_times(2,ii) ;
stage_times = stage_times(~delete_inds);
stage_vals = stage_vals(~delete_inds);
end
%Add to the hypnogram
stage_times = [stage_times art_times(1,:) art_times(2,:)];
stage_vals = [stage_vals 6*ones(1,size(art_times,2)) stage_ends];
end
%Sort the times and plot the hypnogram
[stage_times,sind]=sort(stage_times);
stage_vals=stage_vals(sind);
%Stairs is SLOW
x=[obj.stimes{obj.curr_resolution}(1) stage_times obj.stimes{obj.curr_resolution}(end)];
y=[0 stage_vals(:)' 0];
X=reshape(repmat(x,2,1),1,length(x)*2);
Y=reshape(repmat(y,2,1),1,length(y)*2);
set(obj.hypnoline,'ydata',Y(1:end-1),'xdata',X(2:end));
drawnow;
end
%************************************************************
% UPDATE SPECTROGRAM CHANNEL
%************************************************************
function update_channel(obj, new_chan)
if new_chan<1 || new_chan>obj.num_channels
return;
end
obj.curr_channel = new_chan;
obj.spect_h.CData=squeeze(obj.scube{obj.curr_resolution}(new_chan,:,:));
obj.spect_title_h.String = ['Sleep Spectrogram: ' obj.channel_labels(obj.curr_channel)];
end
%************************************************************
% TOGGLE POPUP VISIBILITY
%************************************************************
function toggle_visible(~, src, varargin)
%Toggles the current visibility of the popup
if strcmp(get(src,'visible'),'on')
set(src,'visible','off');
else
set(src,'visible','on');
end
%Resets focus to the main window
set(0,'currentfigure',get(get(gcbo,'parent'),'parent'));
end
%************************************************************
% HELPER FUNCTION TO CLOSE WINDOWS WITH A HOTKEY
%************************************************************
function toggle_with_key(obj, src,event,keychar)
if lower(event.Key) == keychar
toggle_visible(obj, src,event);
end
end
%************************************************************
% TOGGLE SPECTRUM RESOLUTION
%************************************************************
function toggle_spectrum(varargin)
if strcmpi(get(obj.spect_h,'visible'),'off')
set(obj.spect_h,'visible','on');
set(GUI_data.h_stagespect,'visible','off');
else
set(obj.spect_h,'visible','off');
set(obj.h_stagespect,'visible','on');
end
end
%************************************************************
% SAVE USER SCORING DATA
%************************************************************
function save_scoring(obj, varargin)
obj.msg_textbox_h.String = 'Saving...';
obj.event_marker.save(obj.save_fname);
obj.msg_textbox_h.String = '';
end
%************************************************************
% DETECT ARTIFACTS
%************************************************************
function detect_EEGartifacts(obj, varargin)
% %Get all the stage events and times
% event_types = [obj.event_marker.event_list.type_ID];
% stage_inds = event_types<=6; %Pick only stages
% stage_vals = event_types(stage_inds);
% stage_times = cellfun(@(x)x.XData(1),{obj.event_marker.event_list(stage_inds).obj_handle});
artifacts = detect_artifacts(obj.data{obj.curr_channel}, obj.Fs(obj.curr_channel),...
'zscore_method','robust','hf_crit', 5.5,'bb_crit', 5.5,'slope_test',true, 'verbose',true);
%Get consecutive artifacts longer than one time point
[~, run_inds] = consecutive_runs(artifacts,2);
start_inds = cellfun(@(x)x(1),run_inds);
end_inds = cellfun(@(x)x(end),run_inds);
start_times = start_inds/obj.Fs(obj.curr_channel);
end_times = end_inds/obj.Fs(obj.curr_channel);
ylims = get(obj.axes_main(2),'YLim');
for ii = 1:length(start_times)
newpos = [start_times(ii), ylims(1), end_times(ii)-start_times(ii), diff(ylims)];
obj.event_marker.mark_event(6,newpos)
end
obj.update_hypno([]);
end
%************************************************************
% UPDATE CLIM SLIDER
%************************************************************
function clim_slider_update(obj, varargin)
maxval=get(obj.clim_sliders_h(1),'value');
minval=get(obj.clim_sliders_h(2),'value');
if maxval<=get(obj.clim_sliders_h(2),'value')
maxval=get(obj.clim_sliders_h(2),'value')+1e-10;
end
if minval>=get(obj.clim_sliders_h(1),'value')
minval=get(obj.clim_sliders_h(1),'value')-1e-10;
end
cx=[minval maxval];
% disp(clims);
set(obj.axes_main(2),'clim',cx);
set(obj.clim_editboxes_h(1),'string',num2str(cx(1)));
set(obj.clim_editboxes_h(2),'string',num2str(cx(2)));
end
%************************************************************
% UPDATE CLIM EDIT BOX
%************************************************************
function clim_edit_update(obj, varargin)
%Get the new value from the edited text box
minval=str2double(get(obj.clim_editboxes_h(1),'string'));
maxval=str2double(get(obj.clim_editboxes_h(2),'string'));
if maxval<=get(obj.clim_sliders_h(2),'value')
maxval=get(obj.clim_sliders_h(2),'value')+.001;
end
if minval>=get(obj.clim_sliders_h(1),'value')
minval=get(obj.clim_sliders_h(1),'value')-.001;
end
cx=[minval maxval];
if maxval>get(obj.clim_sliders_h(1),'max')
set(obj.clim_sliders_h(1),'max',maxval,'value',maxval);
elseif maxval<get(obj.clim_sliders_h(1),'min')
set(obj.clim_sliders_h(1),'min',maxval,'value',maxval);
end
if minval>get(obj.clim_sliders_h(2),'max')
set(obj.clim_sliders_h(2),'max',minval,'value',minval);
elseif minval<get(obj.clim_sliders_h(2),'min')
set(obj.clim_sliders_h(2),'min',minval,'value',minval);
end
set(obj.clim_sliders_h(1),'value',maxval);
set(obj.clim_sliders_h(2),'value',minval);
set(obj.clim_editboxes_h(1),'string',minval);
set(obj.clim_editboxes_h(2),'string',maxval);
set(obj.axes_main(2),'clim',cx);
end
%************************************************************
% UPDATE AUTOSCALE
%************************************************************
function clim_autoscale(obj, varargin)
%Autoscale colormap
climscale(obj.axes_main(2),[],true);
cx = caxis(obj.axes_main(2));
set(obj.clim_sliders_h(1),'value', cx(2));
set(obj.clim_sliders_h(2),'value', cx(1));
set(obj.clim_editboxes_h(1),'string',num2str(cx(1)));
set(obj.clim_editboxes_h(2),'string',num2str(cx(2)));
end
%************************************************************
% UPDATE AUTOSCALE
%************************************************************
function pop_3d(obj, varargin)
%Check for image processing toolbox
if ~license('test','image_toolbox')
msgbox('This function is only available with the Image Processing Toolbox');
return
end
%Pause callbacks to let the rectangle draw
obj.pause_callbacks();
%Use drawrectangle if available
if which('drawrectangle.m')
h1 = drawrectangle('Label','Select Region and Hit Enter','Color',[1 0 0]);
else
h1 = imrect; %#ok<IMRECT>
end
%Save the position and kill the rectangle
wait(h1);
pos = h1.Position;
delete(h1);
%Resume all callbacks
obj.resume_callbacks;
%Get the frequency and time range selected
finds = obj.sfreqs{obj.curr_resolution} >= pos(2) & obj.sfreqs{obj.curr_resolution} <= pos(2)+pos(4);
tinds = obj.stimes{obj.curr_resolution} >= pos(1) & obj.stimes{obj.curr_resolution} <= pos(1)+pos(3);
%Extract the spectrogram in the range
pop_spect = squeeze(obj.scube{obj.curr_resolution}(obj.curr_channel,finds,tinds));
pop_sfreqs = obj.sfreqs{obj.curr_resolution}(finds);
pop_stimes = obj.stimes{obj.curr_resolution}(tinds);
%Create the popup figure
figure
surface(pop_stimes,pop_sfreqs,pop_spect,'edgecolor','none');
xlabel('Times (s)');
ylabel('Frequency (Hz)');
zlabel('Power (dB)');
colormap(jet)
view(3);
caxis(caxis(obj.axes_main(2)))
camlight left
camlight right
material dull
lighting phong
shading interp
end
%************************************************************
% HANDLE HOTKEYS
%************************************************************
function handle_keys(obj, ~, event)
switch event.Key
case {'backspace','delete'}
obj.event_marker.delete_selected;
end
%Check for hotkeys pressed
switch lower(event.Character)
case {'w', '5'}
obj.event_marker.mark_event(5);
obj.save_scoring;
case {'r', '4'}
obj.event_marker.mark_event(4);
obj.save_scoring;
case 'n'
obj.event_marker.mark_event(3);
obj.save_scoring;
case '1'
if obj.numstages == 5
obj.event_marker.mark_event(3);
obj.save_scoring;
end
case '2'
if obj.numstages == 5
obj.event_marker.mark_event(2);
obj.save_scoring;
end
case '3'
if obj.numstages == 5
obj.event_marker.mark_event(1);
obj.save_scoring;
end
% case 's'
% obj.event_marker.mark_event(7);
% obj.save_scoring;
case 'a'
%Add artifact event
obj.event_marker.mark_event(6);
obj.save_scoring;
case 't'
art_inds = [obj.event_marker.event_list.type_ID] == 6;
art_handles = [obj.event_marker.event_list(art_inds).obj_handle];
art_label_handles = [obj.event_marker.event_list(art_inds).label_handle];
isvis = strcmp(get(art_label_handles(1),'visible'),'on');
if isvis
set(art_handles,'visible','off');
set(art_label_handles,'visible','off');
else
set(art_handles,'visible','on');
set(art_label_handles,'visible','on');
end
case 'h'
obj.toggle_visible(obj.helpfig_h);
case 'u'
obj.toggle_visible(obj.popfig_h);
case 'q'
obj.close_all;
case 'd'
obj.pop_3d;
case 'x'
obj.detect_EEGartifacts;
case ','
new_chan = obj.curr_channel + 1;
if new_chan > obj.num_channels
new_chan = 1;
end
obj.update_channel(new_chan);
case '.'
new_chan = obj.curr_channel - 1;
if new_chan < 1