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headplot_xy_oddball.m
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headplot_xy_oddball.m
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% headplot() - plot a spherically-splined EEG field map on a semi-realistic
% 3-D head model. Can 3-D rotate the head image using the left
% mouse button.
% Example:
% >> headplot example % show an example spherical 'eloc_angles' file
% >> headplot cartesian % show an example cartesian 'eloc_angles' file
%
% Setup usage (do only once for each scalp montage):
%
% >> headplot('setup', elocs, splinefile, 'Param','Value',...);
% %
% % NOTE: previous call format below is still supported
% % >> headplot('setup', elocs, splinefile, comment, type);
%
% Required Setup-mode Inputs:
%
% elocs - file of electrode locations (compatible with readlocs()),
% or EEG.chanlocs channel location structure. If the channel
% file extension is not standard, use readlocs() to load the
% data file, e.g.
% >> headplot('setup', ...
% readlocs('myfile.xxx', 'filetype', 'besa'),...
% 'splinefile');
% splinefile - name of spline file to save spline info into. It is saved as a
% *.mat file and should be given the extension .spl .
%
% Optional Setup-mode Inputs:
%
% 'meshfile' - ['string' or structure] Matlab files containing a mesh. The
% mesh may be of different formats. It may be a Dipfit mesh as
% defined in the file standard_vol.mat. It may contain
% a structure with the fields 'vertices' and 'faces' or it
% it may contain a structure with at least two fields:
% POS - 3-D positions of vertices:
% x=left-right; y=back-front; z=up-down
% TRI1 - faces on which the scalp map should be computed
% plus possible optional fields are:
% center (optional) - 3-D center of head mesh
% TRI2 (optional) - faces in skin color
% NORM (optional) - normal for each vertex (better shading)
% 'orilocs' - ['off'|'on'] use original electrode locations on the head
% {default: 'off'} (extrapolated to spherical). Note that these
% electrode locations must be coregisted with the head mesh.
% 'transform' - [real array] Talairach-model transformation matrix to co-register
% the electrode locations with the head mesh:
% [shiftX shiftY shiftZ pitch roll yaw scaleX scaleY scaleZ]
% The transform is applied in the order shift(rotate(scale(elocs)))
% by the dipfit2.* plugin function traditionaldipfit.m
% This array is returned by coregister().
% 'plotmeshonly' - [string] plot only mesh and electrode positions. Options are
% 'head' to plot the standard head mesh; 'sphere' to plot the
% texture of the head on a sphere; 'off' not to plot anything.
% {default: 'off'}
% 'comment' - ['string'] optional string containing comments for spline file
% {default: []}
%
% Standard-mode Usage thereafter:
%
% >> headplot(values,'spline_file','Param','Value',...)
%
% Required Standard-mode Inputs:
%
% values - vector containing a data value at each electrode position
% 'spline_file' - spline filename, computed and saved in 'setup' mode (above)
%
% Optional Standard-mode Inputs:
%
% 'meshfile' - [string] mesh file name. See file content in the setup-mode
% description above. {default: the EEGLAB head template file}.
% 'electrodes' - ['on'|'off'] -> show electrode positions {default 'on'}
% 'title' - Plot title {default: none}
% 'labels' - 2 -> plot stored electrode labels;
% 1 -> plot channel numbers;
% 0 -> no labels {default 0}
% 'cbar' - 0 -> Plot colorbar {default: no colorbar}
% Note: standard jet colormap) red = +;blue = -;green=0
% h -> Colorbar axis handle (to specify headplot location)
% 'view' - Camera viewpoint in deg. [azimuth elevation]
% 'back'|'b'=[ 0 30]; 'front'|'f'=[180 30]
% 'left'|'l'=[-90 30]; 'right'|'r'=[ 90 30];
% 'frontleft'|'bl','backright'|'br', etc.,
% 'top'=[0 90], Can rotate with mouse {default [143 18]}
% 'maplimits' - 'absmax' -> make limits +/- the absolute-max
% 'maxmin' -> scale to data range
% [min,max] -> user-definined values
% {default = 'absmax'}
% 'lights' - (3,N) matrix whose rows give [x y z] pos. of each of
% N lights {default: four lights at corners}
% 'lighting' - 'off' = show wire frame head {default 'on'}
% 'material' - [see material function] {default 'dull'}
% 'colormap' - 3-column colormap matrix {default: jet(64)}
% 'verbose' - 'off' -> no msgs, no rotate3d {default: 'on'}
% 'orilocs' - [channel structure or channel file name] Use original
% channel locations instead of the one extrapolated from
% spherical locations. Note that if you use 'orilocs'
% during setup, this is not necessary here since the
% original channel location have already been saved.
% This option might be useful to show more channels than
% the ones actually used for interpolating (e.g., fiducials).
% 'transform' - [real array] homogeneous transformation matrix to apply
% to the original locations ('orilocs') before plotting them.
%
% Note: if an error is generated, headplot() may close the current figure
%
% Authors: Arnaud Delorme, Colin Humphries, Scott Makeig, SCCN/INC/UCSD,
% La Jolla, 1998-
%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
% Copyright (C) Arnaud Delorme, Colin Humphries and Scott Makeig,
% CNL / Salk Institute, Feb. 1998
%
% Spherical spline method: Perrin et al. (1989) Electroenceph clin Neurophys
%
% This program is free software; you can redistribute it and/or modify
% it under the terms of the GNU General Public License as published by
% the Free Software Foundation; either version 2 of the License, or
% (at your option) any later version.
%
% This program is distributed in the hope that it will be useful,
% but WITHOUT ANY WARRANTY; without even the implied warranty of
% MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
% GNU General Public License for more details.
%
% You should have received a copy of the GNU General Public License
% along with this program; if not, write to the Free Software
% Foundation, Inc., 59 Temple Place, Suite 330, Boston, MA 02111-1307 USA
% 12-12-98 changed electrode label lines to MarkerColor -sm
% 12-12-98 added colorbar option -sm (still graphically marred by tan rect.)
% 12-13-98 implemented colorbar option using enhanced cbar -sm
% 12-13-98 implemented 'setup' comment option -sm
% 03-20-00 added cartesian electrode locations option -sm
% 07-14-00 fixed line in calgx() -sm from -ch
% 03-23-01 documented 'cartesian' locfile option -sm
% 01-25-02 reformated help & license, added links -ad
% 03-21-02 added readlocs and the use of eloc input structure -ad
function [HeadAxes, ColorbarHandle] = headplot(values, arg1, varargin)
if nargin < 1
help headplot
return
end
%%%%%%%%%%%%%%%%%%%%%%%%%% Set Defaults %%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
icadefs % load definitions
set(gca,'Color',BACKCOLOR);
%%%editTR June 2017 to adapt for colin27headmesh spline
%DEFAULT_MESH = ['mheadnew.mat']; % upper head model file (987K)
if ~isempty(strfind(arg1,'colin'))
DEFAULT_MESH = ['colin27headmesh.mat'];
else
DEFAULT_MESH = ['mheadnew.mat'];
end
%%endeditTR
DEFAULT_TRANSFORM = [0 -5 0 -0.1000 0 -1.5700 1040 800 950]; % stretching in different dimensions
DEFAULT_TRANSFORM = [0 -10 0 -0.1000 0 -1.600 1100 1100 1100]; % keep spherical shape.
%[0 0 0 0 0.02 -1.58 90.8693 90.8693 90.8693] = TRmanual2017
%DEFAULT_MESH = '/home/arno/matlab/juliehiresmesh.mat';
%DEFAULT_MESH = ['/home/scott/matlab/old' '/newupper.mat']; % whole head model file (183K)
DEFAULT_LIGHTS = [-125 125 80; ...
125 125 80; ...
125 -125 125; ...
-125 -125 125]; % default lights at four corners
HeadCenter = [0 0 30];
FaceColor = [.8 .55 .35]*1.1; % ~= ruddy Caucasian - pick your complexion!
MAX_ELECTRODES = 1024;
ElectDFac = 1.06; % plot electrode marker dots out from head surface
plotelecopt.NamesDFac = 1.05; % plot electrode names/numbers out from markers
plotelecopt.NamesColor = 'k'; % 'r';
plotelecopt.NamesSize = 10; % FontSize for electrode names
%%%editTR June 2017 to adapt for grayelectrodes on spline
%plotelecopt.MarkerColor= 'k';
if ~isempty(strfind(arg1,'gray'))
plotelecopt.MarkerColor = [.4 .4 .4]
else
plotelecopt.MarkerColor = [0 0 0]
end
%%endeditTR
sqaxis = 1; % if non-zero, make head proportions anatomical
title_font = 18;
if isstr(values)
values = lower(values);
if strcmp(values,'setup')
%
%%%%%%%%%%%%%%%%%%% Perform splining file setup %%%%%%%%%%%%%%%%%%%%%%%%%%%%
%
if nargin < 3
help headplot;
return;
end;
eloc_file = arg1;
spline_file = varargin{1};
g = finputcheck(varargin(2:end), { 'orilocs' 'string' { 'on','off' } 'off';
'plotmeshonly' 'string' { 'head','off','sphere' } 'off';
'meshfile' { 'string','struct' } [] DEFAULT_MESH;
'chaninfo' 'struct' [] struct([]);
'plotchans' 'integer' [] [];
'ica' 'string' { 'on','off' } 'off';
'transform' 'real' [] DEFAULT_TRANSFORM;
'comment' 'string' [] '' }, 'headplot', 'ignore');
if isstr(g),
error(g);
end;
%%%%%%%%%%%%%%%%%%%%%%%%%%%
% Open electrode file
%%%%%%%%%%%%%%%%%%%%%%%%%%%
[eloc_file labels Th Rd indices] = readlocs(eloc_file);
indices = find(~cellfun('isempty', {eloc_file.X }));
% channels to plot
% ----------------
if isempty(g.plotchans), g.plotchans = [1:length(eloc_file)]; end;
if ~isfield(g.chaninfo, 'nosedir'), g.chaninfo(1).nosedir = '+x'; end;
indices = intersect(g.plotchans, indices);
% if ICA select subset of channels if necessary
% ---------------------------------------------
if ~isfield(g.chaninfo, 'icachansind'), g.chaninfo(1).icachansind = 1:length(eloc_file); end;
if strcmpi(g.ica, 'on'),
rmchans2 = setdiff( g.chaninfo.icachansind, indices ); % channels to remove (non-plotted)
newinds = 1:length(g.chaninfo.icachansind);
allrm = [];
% remove non-plotted channels from indices
for index = 1:length(rmchans2)
chanind = find(g.chaninfo.icachansind == rmchans2(index));
allrm = [ allrm chanind ];
end;
newinds(allrm) = [];
indices = newinds;
eloc_file = eloc_file(g.chaninfo.icachansind);
end;
fprintf('Headplot: using existing XYZ coordinates\n');
ElectrodeNames = strvcat({ eloc_file.labels });
ElectrodeNames = ElectrodeNames(indices,:);
Xeori = [ eloc_file(indices).X ]';
Yeori = [ eloc_file(indices).Y ]';
Zeori = [ eloc_file(indices).Z ]';
[newPOS POS TRI1 TRI2 NORM index1 center] = getMeshData(g.meshfile);
%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
% rotate channel coordinates if necessary
%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
if strcmpi(lower(g.chaninfo.nosedir), '+x')
rotate = 0;
else
if strcmpi(lower(g.chaninfo.nosedir), '+y')
rotate = 3*pi/2;
elseif strcmpi(lower(g.chaninfo.nosedir), '-x')
rotate = pi;
else rotate = pi/2;
end;
allcoords = (Yeori + Xeori*sqrt(-1))*exp(sqrt(-1)*rotate);
Xeori = imag(allcoords);
Yeori = real(allcoords);
end;
newcoords = [ Xeori Yeori Zeori ];
%newcoords = transformcoords( [ Xe Ye Ze ], [0 -pi/16 -1.57], 100, -[6 0 46]);
%newcoords = transformcoords( [ Xeori Yeori Zeori ], g.transform(4:6), g.transform(7:9), g.transform(1:3));
% same performed below with homogenous transformation matrix
transmat = traditionaldipfit( g.transform ); % arno
newcoords = transmat*[ newcoords ones(size(newcoords,1),1)]';
newcoords = newcoords(1:3,:)';
% original center was [6 0 16] but the center of the sphere is [0 0 30]
% which compensate (see variable Headcenter)
%newcoords = transformcoords( [ Xe Ye Ze ], -[0 0 -pi/6]);
% %%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
% normalize with respect to head center
% %%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
newcoordsnorm = newcoords - ones(size(newcoords,1),1)*HeadCenter;
tmpnorm = sqrt(sum(newcoordsnorm.^2,2));
Xe = newcoordsnorm(:,1)./tmpnorm;
Ye = newcoordsnorm(:,2)./tmpnorm;
Ze = newcoordsnorm(:,3)./tmpnorm;
%plotchans3d([ Xe Ye Ze], cellstr(ElectrodeNames)); return;
%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
% Calculate g(x) for electrodes
%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
if strcmpi(g.plotmeshonly, 'off')
fprintf('Setting up splining matrix.\n');
enum = length(Xe);
onemat = ones(enum,1);
G = zeros(enum,enum);
for i = 1:enum
ei = onemat-sqrt((Xe(i)*onemat-Xe).^2 + (Ye(i)*onemat-Ye).^2 + ...
(Ze(i)*onemat-Ze).^2); % default was /2 and no sqrt
gx = zeros(1,enum);
for j = 1:enum
gx(j) = calcgx(ei(j));
end
G(i,:) = gx;
end
end;
fprintf('Calculating splining matrix...\n')
%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
% Open mesh file - contains POS and index1
%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
% Project head vertices onto unit sphere
%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
spherePOS = newPOS-ones(size(newPOS,1),1)*HeadCenter; % recenter
nPOSnorm = sqrt(sum(spherePOS.^2,2));
spherePOS(:,1) = spherePOS(:,1)./nPOSnorm;
spherePOS(:,2) = spherePOS(:,2)./nPOSnorm;
spherePOS(:,3) = spherePOS(:,3)./nPOSnorm;
x = spherePOS(:,1);
y = spherePOS(:,2);
z = spherePOS(:,3);
%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
% Calculate new electrode positions on head
%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
if strcmpi(g.orilocs, 'off')
fprintf('Computing electrode locations on head...\n');
for i=1:length(Xe)
elect = [Xe(i) Ye(i) Ze(i)];
dists = distance(elect,spherePOS');
[S,I] = sort(dists);
npoints = I(1:3); % closest 3 points
diffe = newPOS(npoints,:)-spherePOS(npoints,:);
newElect(i,:) = elect+mean(diffe)*ElectDFac;
%if Ze(i) < 0 % Plot superior electrodes only.
% newElect(i,:) = [0 0 0]; % Mark lower electrodes as having
%end % an electrode position not to be plotted
end
else
fprintf('Using original electrode locations on head...\n');
newElect = newcoords;
end;
% %%%%%%%%%%%%%%%%%%%%%%%%%%%%%
% plot mesh and electrodes only
% %%%%%%%%%%%%%%%%%%%%%%%%%%%%%
if ~strcmpi(g.plotmeshonly, 'off')
if strcmpi(g.plotmeshonly, 'sphere')
newElect(:,1) = Xe;
newElect(:,2) = Ye;
newElect(:,3) = Ze;
POS(index1,:) = spherePOS; HeadCenter = [ 0 0 0 ];
end;
plotmesh(TRI1, POS, NORM);
plotelecopt.labelflag = 0;
plotelec(newElect, ElectrodeNames, HeadCenter, plotelecopt);
rotate3d;
return;
end;
%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
% Calculate g(x) for sphere mesh vertices
%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
fprintf('Computing %d vertices. Should take a while (see wait bar)\n',...
length(x))
fprintf(' but doesnt have to be done again for this montage...\n');
icadefs;
gx = fastcalcgx(x,y,z,Xe,Ye,Ze);
%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
% Save spline file
%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
comment = g.comment;
headplot_version = 2;
transform = g.transform;
try, save(spline_file, '-V6', '-mat', 'Xe', 'Ye', 'Ze', 'G', 'gx', 'newElect', ...
'ElectrodeNames', 'indices', 'comment', 'headplot_version', 'transform');
catch,
try, save(spline_file, '-mat', 'Xe', 'Ye', 'Ze', 'G', 'gx', 'newElect', ...
'ElectrodeNames', 'indices', 'comment', 'headplot_version', 'transform');
catch, error('headplot: save spline file error, out of space or file permission problem');
end;
end;
tmpinfo = dir(spline_file);
fprintf('Saving (%dk) file %s\n',round(tmpinfo.bytes/1000), spline_file);
return
elseif strcmp(values,'example') | strcmp(values,'demo')
%
%%%%%%%%%%%%%%%%%% Show an example electrode angles file %%%%%%%%%%%%%%%%%%%%%%%%
%
fprintf(['\nExample of a headplot() electrode angles file (spherical coords.)\n',...
'Fields: chan_num cor_deg horiz_deg channel_name\n\n',...
' 1 -90 -72 Fp1.\n',...
' 2 90 72 Fp2.\n',...
' 3 -62 -57 F3..\n',...
' 4 62 57 F4..\n',...
' 5 -45 0 C3..\n',...
' 6 45 0 C4..\n',...
' 7 -118 2 A1..\n',...
' 8 118 -2 A2..\n',...
' 9 -62 57 P3..\n',...
' 10 62 -57 P4..\n',...
' 11 -90 72 O1..\n',...
' 12 90 -72 O2..\n',...
' 13 -90 -36 F7..\n',...
' 14 90 36 F8..\n',...
' 15 -90 0 T3..\n',...
' 16 90 0 T4..\n',...
' 17 -90 36 T5..\n',...
' 18 90 -36 T6..\n',...
' 19 45 90 Fz..\n',...
' 20 0 0 Cz..\n',...
' 21 45 -90 Pz..\n',...
'\nA 90 deg coronal rotation points to right ear, -90 to left.\n' ,...
'A positive horizontal rotation is counterclockwise from above.\n',...
'Use pol2sph() to convert from topoplot() format to spherical.\n',...
'Channel names should have 4 chars (. = space).\n',...
'See also >> headplot cartesian\n\n\n']);
return
elseif strcmp(values,'cartesian')
%
%%%%%%%%%%%%%%%%%% Show an example cartesian electrode file %%%%%%%%%%%%%%%%%%%
%
fprintf(['\nExample of a headplot() electrode location file (cartesian coords.)\n',...
'Fields: chan_num x y z channel_name\n\n',...
' 1 0.4528 0.8888 -0.0694 Fp1.\n',...
'Channel names should have 4 chars (. = space).\n',...
'See also >> headplot example\n\n\n']);
return
else
fprintf('headplot(): Unknown first argument (%s).\n',values)
help headplot
end
else
%
%%%%%%%%%%%%%%%%%%%%%%%%%% Make the plot %%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
%
if nargin < 2
help headplot
return
end
spline_file = arg1;
g = finputcheck( varargin, { ...
'cbar' 'real' [0 Inf] []; % Colorbar value must be 0 or axis handle.'
'lighting' 'string' { 'on','off' } 'on';
'verbose' 'string' { 'on','off' } 'on';
'maplimits' { 'string','real' } [] 'absmax';
'title' 'string' [] '';
'lights' 'real' [] DEFAULT_LIGHTS;
'view' { 'string','real' } [] [143 18];
'colormap' 'real' [] jet(256);
'transform' 'real' [] [];
'meshfile' {'string','struct' } [] DEFAULT_MESH;
'electrodes' 'string' { 'on','off' } 'on';
'material' 'string' [] 'dull';
'orilocs' { 'string','struct' } [] '';
'labels' 'integer' [0 1 2] 0 }, 'headplot');
if isstr(g) error(g); end;
%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
% Open head mesh and electrode spline files
%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
if ~exist(spline_file)
error(sprintf('headplot(): spline_file "%s" not found. Run headplot in "setup" mode\n',...
spline_file));
end
load(spline_file, '-mat');
if exist('indices'),
try,
values = values(indices);
catch, error('problem of index or electrode number with splinefile'); end;
end;
enum = length(values);
if enum ~= length(Xe)
close;
error('headplot(): Number of values in spline file should equal number of electrodes')
end
% change electrode if necessary
% -----------------------------
if ~isempty(g.orilocs)
eloc_file = readlocs( g.orilocs );
fprintf('Using original electrode locations on head...\n');
indices = find(~cellfun('isempty', { eloc_file.X } ));
newElect(:,1) = [ eloc_file(indices).X ]'; % attention inversion before
newElect(:,2) = [ eloc_file(indices).Y ]';
newElect(:,3) = [ eloc_file(indices).Z ]';
% optional transformation
% -----------------------
if ~isempty(g.transform)
transmat = traditionaldipfit( g.transform ); % arno
newElect = transmat*[ newElect ones(size(newElect,1),1)]';
newElect = newElect(1:3,:)';
end;
end;
% --------------
% load mesh file
% --------------
[newPOS POS TRI1 TRI2 NORM index1 center] = getMeshData(g.meshfile);
%%%%%%%%%%%%%%%%%%%%%%%%%%
% Perform interpolation
%%%%%%%%%%%%%%%%%%%%%%%%%%
meanval = mean(values); values = values - meanval; % make mean zero
onemat = ones(enum,1);
lamd = 0.1;
C = pinv([(G + lamd);ones(1,enum)]) * [values(:);0]; % fixing division error
P = zeros(1,size(gx,1));
for j = 1:size(gx,1)
P(j) = dot(C,gx(j,:));
end
P = P + meanval;
%%%%%%%%%%%%%%%%%%%%%%%%%%
% Plot surfaces
%%%%%%%%%%%%%%%%%%%%%%%%%%
cla % clear axis
HeadAxes = gca;
W = zeros(1,size(POS,1));
m = size(g.colormap,1);
if size(g.maplimits) == [1,2]
amin = g.maplimits(1);
amax = g.maplimits(2);
elseif strcmp(g.maplimits,'maxmin') | strcmp(g.maplimits,'minmax')
amin = min(min(abs(P)))*1.02; % 2% shrinkage keeps within color bounds
amax = max(max(abs(P)))*1.02;
elseif strcmp(g.maplimits,'absmax')
amin = min(min(abs(P)))*1.02; % 2% shrinkage keeps within color bounds
amax = max(max(abs(P)))*1.02;
amax = max(-amin, amax);
amin = -amax;
%amin = -max(max(abs(P)))*1.02; % 2% shrinkage keeps within color bounds
%amax = -amin;
end
idx = min(m,round((m-1)*(P-amin)/(amax-amin))+1); % get colormap indices
%subplot(1,2,1); hist(P(:));
%idx = round((m-1)*P/(amax-amin))+m/2;
%idx = max(1,min(m,idx)); % get colormap indices
%subplot(1,2,2); hist(idx(:));
%return;
W(index1) = idx;
colormap(g.colormap)
p1 = patch('Vertices',POS,'Faces',TRI1,'FaceVertexCdata',W(:),...
'FaceColor','interp', 'cdatamapping', 'direct', 'tag', 'mesh'); %%%%%%%%% Plot scalp map %%%%%%%%%
if exist('NORM') == 1 & ~isempty(NORM)
set(p1, 'vertexnormals', NORM);
end;
if ~isempty(TRI2)
FCmap = [g.colormap; g.colormap(end,:); FaceColor; FaceColor; FaceColor];
colormap(FCmap)
W = ones(1,size(POS,1))*(m+2);
p2 = patch('Vertices',POS,'Faces',TRI2,'FaceColor','interp',...
'FaceVertexCdata',W(:)); %%%%%%%% Plot face and lower head %%%%%%
else
p2 = [];
end;
axis([-125 125 -125 125 -125 125])
axis off % hide axis frame
%%%%%%%%%%%%%%%%%%%%%%%%%
% Draw colorbar - Note: uses enhanced cbar() function by Colin Humphries
%%%%%%%%%%%%%%%%%%%%%%%%%
if ~isempty(g.cbar)
BACKCOLOR = get(gcf,'Color');
if g.cbar == 0
ColorbarHandle = cbar(0,3,[amin amax]);
pos = get(ColorbarHandle,'position'); % move left & shrink to match head size
set(ColorbarHandle,'position',[pos(1)-.05 pos(2)+0.13 pos(3)*0.7 pos(4)-0.26]);
else
ColorbarHandle = cbar(g.cbar,3,[amin amax]);
end
end
axes(HeadAxes);
%%%%%%%%%%%%%%%%%%%%%%%%%
% Turn on lights
%%%%%%%%%%%%%%%%%%%%%%%%%
if strcmp(g.lighting,'on')
set([p1 p2],'EdgeColor','none')
for i = 1:size(g.lights,1)
hl(i) = light('Position',g.lights(i,:),'Color',[1 1 1],...
'Style','infinite');
end
if ~isempty(p2)
set(p2,'DiffuseStrength',.6,'SpecularStrength',0,...
'AmbientStrength',.4,'SpecularExponent',5)
end;
set(p1,'DiffuseStrength',.6,'SpecularStrength',0,...
'AmbientStrength',.3,'SpecularExponent',5)
lighting phong % all this gives a matte reflectance
material(g.material);
end
%%%%%%%%%%%%%%%%%%%%%%%%%
% Set viewpoint
%%%%%%%%%%%%%%%%%%%%%%%%%
if isstr(g.view)
switch lower(g.view)
case {'front','f'}
view(-180,30)
case {'back','b'}
view(0,30)
case {'left','l'}
view(-90,30)
case {'right','r'}
view(90,30)
case {'frontright','fr'}
view(135,30)
case {'backright','br'}
view(45,30)
case {'frontleft','fl'}
view(-135,30)
case {'backleft','bl'}
view(-45,30)
case 'top'
view(0,90)
case 'bottom' % undocumented option!
view(0,-90)
Lights = [-125 125 80; ...
125 125 80; ...
125 -125 125; ...
-125 -125 125; ...
0 10 -80]; % add light from below!
otherwise
close; error(['headplot(): Invalid View value %s',g.view])
end
else
if ~isstr(g.view)
[h,a] = size(g.view);
if h~= 1 | a~=2
close; error('headplot(): View matrix size must be (1,2).')
end
end
view(g.view) % set camera viewpoint
end
if strcmp(g.electrodes,'on') % plot the electrode locations
if exist('newElect')
plotelecopt.labelflag = g.labels;
%modify channel 89 and 102 y-location - XY
newElect(92,2) = newElect(92,2)-30;
newElect(102,2) = -52;
plotelec(newElect, ElectrodeNames, HeadCenter, plotelecopt);
else
fprintf('Variable newElect not read from spline file.\n');
end
end
%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
% Turn on rotate3d, allowing rotation of the plot using the mouse
%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
if strcmp(g.verbose,'on')
rotate3d on; % Allow 3-D rotation of the plot by dragging the
else % left mouse button while cursor is on the plot
rotate3d off
end
% Make axis square
if sqaxis
axis image % keep the head proportions human and as large as possible
end
% Add a plot title
if ~isempty(g.title);
% title(['\n' g.title],'fontsize',title_font);
title([g.title],'fontsize',title_font); % Note: \n not interpreted by matlab-5.2
end
end
%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
% calcgx() - function used in 'setup'
%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
function [out] = calcgx(in)
out = 0;
m = 4; % 4th degree Legendre polynomial
for n = 1:7 % compute 7 terms
L = legendre(n,in);
out = out + ((2*n+1)/(n^m*(n+1)^m))*L(1);
end
out = out/(4*pi);
%%%%%%%%%%%%%%%%%%%
function gx = fastcalcgx(x,y,z,Xe,Ye,Ze)
onemat = ones(length(x),length(Xe));
EI = onemat - sqrt((repmat(x,1,length(Xe)) - repmat(Xe',length(x),1)).^2 +...
(repmat(y,1,length(Xe)) - repmat(Ye',length(x),1)).^2 +...
(repmat(z,1,length(Xe)) - repmat(Ze',length(x),1)).^2);
%
gx = zeros(length(x),length(Xe));
m = 4;
icadefs;
hwb = waitbar(0,'Computing spline file (only done once)...', 'color', BACKEEGLABCOLOR);
hwbend = 7;
for n = 1:7
L = legendre(n,EI);
gx = gx + ((2*n+1)/(n^m*(n+1)^m))*squeeze(L(1,:,:));
waitbar(n/hwbend,hwb);
end
gx = gx/(4*pi);
close(hwb);
%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
% distance() - function used in 'setup'
%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
function [out] = distance(w,p)
% w is a matrix of row vectors
% p is a matrix of column vectors
l1 = size(w,1);
l2 = size(p,2);
out = zeros(l1,l2);
for i = 1:l1
x = w(i,:)'*ones(1,l2);
out(i,:) = sum((x-p).^2).^.5;
end
% %%%%%%%%%%%%%%%
% plot electrodes
% %%%%%%%%%%%%%%%
function plotelec(newElect, ElectrodeNames, HeadCenter, opt);
newNames = newElect*opt.NamesDFac; % Calculate electrode label positions
for i = 1:size(newElect,1)
if newElect(i,:) ~= [0 0 0] % plot radial lines to electrode sites
%commented out by XY
% line([newElect(i,1) HeadCenter(1)],[newElect(i,2) HeadCenter(2)],...
% [newElect(i,3) HeadCenter(3)],'color',opt.MarkerColor,'linewidth',1);
if opt.labelflag == 1 % plot electrode numbers
t=text(newNames(i,1),newNames(i,2),newNames(i,3),int2str(i));
set(t,'Color',opt.NamesColor,'FontSize',opt.NamesSize,'FontWeight','bold',...
'HorizontalAlignment','center');
elseif opt.labelflag == 2 % plot electrode names
if exist('ElectrodeNames')
name = sprintf('%s',ElectrodeNames(i,:));
t=text(newNames(i,1),newNames(i,2),newNames(i,3),name);
set(t,'Color',opt.NamesColor,'FontSize',opt.NamesSize,'FontWeight','bold',...
'HorizontalAlignment','center');
else
fprintf('Variable ElectrodeNames not read from spline file.\n');
end
else % plot electrode markers
OT=[57 58 59 64 65 63 68 90 91 95 96 100 99 94];
% OCC = [71 76 75 70 69 74 82 83 89];
if ismember(i,OT+3)
opt.MarkerColor = [0 0 0]
% elseif ismember(i,OCC+3)
% opt.MarkerColor = [1 1 1]
else
opt.MarkerColor = [0.5 0.5 0.5]
end
line(newElect(i,1),newElect(i,2),newElect(i,3),'marker',...
'.','markersize',12,'color',opt.MarkerColor,'linestyle','none');
end
end;
end
% get mesh information
% --------------------
function [newPOS POS TRI1 TRI2 NORM index1 center] = getMeshData(meshfile);
if ~isstruct(meshfile)
if ~exist(meshfile)
error(sprintf('headplot(): mesh file "%s" not found\n',meshfile));
end
fprintf('Loaded mesh file %s\n',meshfile);
try
meshfile = load(meshfile,'-mat');
catch,
meshfile = [];
meshfile.POS = load('mheadnewpos.txt', '-ascii');
meshfile.TRI1 = load('mheadnewtri1.txt', '-ascii'); % upper head
try, TRI2 = load('mheadnewtri2.txt', '-ascii'); catch, end; % lower head
index1 = load('mheadnewindex1.txt', '-ascii');
meshfile.center = load('mheadnewcenter.txt', '-ascii');
end;
end;
if isfield(meshfile, 'vol')
if isfield(meshfile.vol, 'r')
[X Y Z] = sphere(50);
POS = { X*max(meshfile.vol.r) Y*max(meshfile.vol.r) Z*max(meshfile.vol.r) };
TRI1 = [];
else
POS = meshfile.vol.bnd(1).pnt;
TRI1 = meshfile.vol.bnd(1).tri;
end;
elseif isfield(meshfile, 'bnd')
POS = meshfile.bnd(1).pnt;
TRI1 = meshfile.bnd(1).tri;
elseif isfield(meshfile, 'TRI1')
POS = meshfile.POS;
TRI1 = meshfile.TRI1;
try TRI2 = meshfile.TRI2; end % NEW
try center = meshfile.center; end % NEW
elseif isfield(meshfile, 'vertices')
POS = meshfile.vertices;
TRI1 = meshfile.faces;
else
error('Unknown Matlab mesh file');
end;
if exist('index1') ~= 1, index1 = sort(unique(TRI1(:))); end;
if exist('TRI2') ~= 1, TRI2 = []; end;
if exist('NORM') ~= 1, NORM = []; end;
if exist('TRI1') ~= 1, error('Variable ''TRI1'' not defined in mesh file'); end;
if exist('POS') ~= 1, error('Variable ''POS'' not defined in mesh file'); end;
if exist('center') ~= 1, center = [0 0 0]; disp('Using [0 0 0] for center of head mesh'); end;
newPOS = POS(index1,:);