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Copy pathAnHT_plot.m
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AnHT_plot.m
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% Run this script to perform plot for Hilbert transform analyses of mouse
% data.
% LOAD PRE-PROCESSED DATA
if ~exist('dataStruct','var')
load(dataFile);
end
% INITIALISE PARALLEL POOL
% delete(gcp('nocreate'))
% pool = parpool;
% feature('numcores');
% LOOP THROUGH DB ENTRIES
fWidth = 'wide';
visibility = 'on';
histMeanPhaseRelationTotal = [];
fnsData = fieldnames(dataStruct);
significance = 0.05;
for dbCount = numel(fnsData):-1:1
dbStruct = dataStruct.(fnsData{dbCount});
shankIDs = fieldnames(dbStruct);
% LOOP THROUGH SHANKS
for sh = 1:numel(shankIDs)
shankStruct = dbStruct.(shankIDs{sh});
fprintf('Processing %s shank %d \n', fnsData{dbCount}, sh);
% LOAD THE CONTENTS OF THE SHANK STRUCTURE VARIABLE
units = shankStruct.units;
FOI = shankStruct.FOI;
edges = shankStruct.edges;
phasePairsHT = shankStruct.phasePairsHT;
histPhaseRelation = shankStruct.histPhaseRelation;
meanPhaseRelation = shankStruct.meanPhaseRelation;
MPRCu = shankStruct.MPRCu;
MPRCl = shankStruct.MPRCl;
histMeanPhaseRelation = shankStruct.histMeanPhaseRelation;
% histPhaseRelationIS = shankStruct.histPhaseRelationIS;
% meanPhaseRelationIS = shankStruct.meanPhaseRelationIS;
% MPRISCu = shankStruct.MPRISCu;
% MPRISCl = shankStruct.MPRISCl;
% histMeanPhaseRelationIS = shankStruct.histMeanPhaseRelationIS;
% histPhaseRelationSD = shankStruct.histPhaseRelationSD;
% meanPhaseRelationSD = shankStruct.meanPhaseRelationSD;
% MPRSDCu = shankStruct.MPRSDCu;
% MPRSDCl = shankStruct.MPRSDCl;
% histMeanPhaseRelationSD = shankStruct.histMeanPhaseRelationSD;
% histPhaseRelationSS = shankStruct.histPhaseRelationSS;
% meanPhaseRelationSS = shankStruct.meanPhaseRelationSS;
% MPRSSCu = shankStruct.MPRSSCu;
% MPRSSCl = shankStruct.MPRSSCl;
% histMeanPhaseRelationSS = shankStruct.histMeanPhaseRelationSS;
% histPhaseRelationSF = shankStruct.histPhaseRelationSF;
% meanPhaseRelationSF = shankStruct.meanPhaseRelationSF;
% MPRSFCu = shankStruct.MPRSFCu;
% MPRSFCl = shankStruct.MPRSFCl;
% histMeanPhaseRelationSF = shankStruct.histMeanPhaseRelationSF;
histPhaseRelationSpk = shankStruct.histPhaseRelationSpk;
meanPhaseRelationSpk = shankStruct.meanPhaseRelationSpk;
MPRSpkCu = shankStruct.MPRSpkCu;
MPRSpkCl = shankStruct.MPRSpkCl;
PLV = shankStruct.PLV;
MI = shankStruct.MI;
r = shankStruct.r;
rd = shankStruct.rd;
histMeanPhaseRelationSpk = shankStruct.histMeanPhaseRelationSpk;
Q = shankStruct.Q;
for dbCountShank = 1:numel(shankStruct.db)
if shankStruct.db(dbCountShank).entryName == fnsData{dbCount}
animal = shankStruct.db(dbCountShank).animal;
entryName = shankStruct.db(dbCountShank).entryName;
break
end
end
% LOOP THROUGH UNITS
nUnits = numel(units);
for u = 1:nUnits
fprintf('Processing %s shank %d unit %d\n', fnsData{dbCount}, sh, u);
q = Q{u};
% ASSIGN UNIT-RELATED VARIABLES
% histPhaseRelation_u = histPhaseRelation{u};
% histPhaseRelationIS_u = histPhaseRelationIS{u};
% histPhaseRelationSD_u = histPhaseRelationSD{u};
% histPhaseRelationSF_u = histPhaseRelationSF{u};
% histPhaseRelationSS_u = histPhaseRelationSS{u};
histPhaseRelationSpk_u = histPhaseRelationSpk{u};
% meanPhaseRelation_u = meanPhaseRelation(:,u);
% meanPhaseRelationIS_u = meanPhaseRelationIS(:,u);
% meanPhaseRelationSD_u = meanPhaseRelationSD(:,u);
% meanPhaseRelationSF_u = meanPhaseRelationSF(:,u);
% meanPhaseRelationSS_u = meanPhaseRelationSS(:,u);
meanPhaseRelationSpk_u = meanPhaseRelationSpk(:,u);
% PLOT UNIT-RELATED DATA AND SAVE GRAPHS
% for f = 1:numel(FOI)
% figFileName = [entryName '_' num2str(q.unit) '_' fWidth 'FreqPhaseRelation' '_same_freq_' num2str(FOI(f))...
% '___mean_' num2str(meanPhaseRelation_u(f))];
% figFileName = strrep(figFileName,'.','p');
% h = phaseHistPlot(edges, histPhaseRelation_u(f,:), '# cycles', figFileName, visibility);
% close(h);
% end
% for f = 1:numel(meanPhaseRelationIS_u)
% figFileName = [entryName '_' num2str(q.unit) '_' fWidth 'FreqPhaseRelation' '_P_infra-slow_' num2str(FOI(1)) '_vs_U_' num2str(FOI(f+1))...
% '___mean_' num2str(meanPhaseRelationIS_u(f))];
% figFileName = strrep(figFileName,'.','p');
% h = phaseHistPlot(edges, histPhaseRelationIS_u(f,:), '# cycles', figFileName, visibility);
% close(h);
% end
%
% for f = 1:numel(meanPhaseRelationSD_u)
% figFileName = [entryName '_' num2str(q.unit) '_' fWidth 'FreqPhaseRelation' '_P_slow_' num2str(FOI(3)) '_vs_U_delta_' num2str(FOI(5))...
% '___mean_' num2str(meanPhaseRelationSD_u(f))];
% figFileName = strrep(figFileName,'.','p');
% h = phaseHistPlot(edges, histPhaseRelationSD_u(f,:), '# cycles', figFileName, visibility);
% close(h);
% end
%
% for f = 1:numel(meanPhaseRelationSS_u)
% figFileName = [entryName '_' num2str(q.unit) '_' fWidth 'FreqPhaseRelation' '_P_slow_' num2str(FOI(3)) '_vs_U_spindle_' num2str(FOI(6))...
% '___mean_' num2str(meanPhaseRelationSS_u(f))];
% figFileName = strrep(figFileName,'.','p');
% h = phaseHistPlot(edges, histPhaseRelationSS_u(f,:), '# cycles', figFileName, visibility);
% close(h);
% end
%
% for f = 1:numel(meanPhaseRelationSF_u)
% figFileName = [entryName '_' num2str(q.unit) '_' fWidth 'FreqPhaseRelation' '_P_spindle_' num2str(FOI(6)) '_vs_U_fast_' num2str(FOI(7))...
% '___mean_' num2str(meanPhaseRelationSF_u(f))];
% figFileName = strrep(figFileName,'.','p');
% h = phaseHistPlot(edges, histPhaseRelationSF_u(f,:), '# cycles', figFileName, visibility);
% close(h);
% end
for f = 1:numel(FOI)
figFileName = [entryName '_' num2str(q.unit) '_' fWidth 'FreqPhaseRelation' 'Spk' '_same_freq_' num2str(FOI(f))...
'___mean_' num2str(meanPhaseRelationSpk_u(f)) '_PLV_' num2str(PLV{u}(f)) '_MI_' num2str(MI{u}(f))];
figFileName = strrep(figFileName,'.','p');
h = phaseHistPlot(edges, histPhaseRelationSpk_u(f,:), '# spikes', figFileName, visibility);
close(h);
end
for p = 1:size(phasePairsHT,1)
if u == 1
figFileName = ['Correlation: Phase @ ' num2str(FOI(phasePairsHT(p,1))) ' Hz vs phase @ ' num2str(FOI(phasePairsHT(p,2))) ' Hz'];
figH(p) = figProperties(figFileName, 'normalized', [0, .005, .97, .90], 'w', visibility);
ylabel('Correlation coef. r');
title(['Correlation: Phase @ ' num2str(FOI(phasePairsHT(p,1))) ' Hz vs phase @ ' num2str(FOI(phasePairsHT(p,2))) ' Hz']);
else
set(0, 'CurrentFigure', figH(p))
end
if r{u}(p,3) < significance
hold on
plot(r{u}(p,1), '.', 'MarkerSize',10)
hold off
end
if u == 1
figFileName = ['Correlation: Absolute phase @ ' num2str(FOI(phasePairsHT(p,1))) ' Hz vs phase @ ' num2str(FOI(phasePairsHT(p,2))) ' Hz'];
figHD(p) = figProperties(figFileName, 'normalized', [0, .005, .97, .90], 'w', visibility);
ylabel('Correlation coef. r');
title(['Correlation: Phase @ ' num2str(FOI(phasePairsHT(p,1))) ' Hz vs phase @ ' num2str(FOI(phasePairsHT(p,2))) ' Hz']);
else
set(0, 'CurrentFigure', figHD(p))
end
if rd{u}(p,3) < significance
hold on
plot(rd{u}(p,1), '.', 'MarkerSize',10)
hold off
end
end
end
% PLOT SHANK-RELATED DATA AND SAVE GRAPHS
% for f = 1:numel(FOI)
% figFileName = [entryName '_' fWidth 'FreqPhaseRelation' '_same_freq_' num2str(FOI(f))];
% figFileName = strrep(figFileName,'.','p');
% h = phaseHistPlot(edges, histMeanPhaseRelation(f,:), '# neurons', figFileName, visibility);
% close(h);
% end
% for f = 1:size(histMeanPhaseRelationIS,1)
% figFileName = [entryName '_' fWidth 'FreqPhaseRelation' '_infra-slow_' num2str(FOI(1)) '_vs_U_' num2str(FOI(f+1))];
% figFileName = strrep(figFileName,'.','p');
% h = phaseHistPlot(edges, histMeanPhaseRelationIS(f,:), '# neurons', figFileName, visibility);
% close(h);
% end
%
% for f = 1:size(histMeanPhaseRelationSD,1)
% figFileName = [entryName '_' fWidth 'FreqPhaseRelation' '_slow_' num2str(FOI(3)) '_vs_delta_' num2str(FOI(5))];
% figFileName = strrep(figFileName,'.','p');
% h = phaseHistPlot(edges, histMeanPhaseRelationSD(f,:), '# neurons', figFileName, visibility);
% close(h);
% end
%
% for f = 1:size(histMeanPhaseRelationSS,1)
% figFileName = [entryName '_' fWidth 'FreqPhaseRelation' '_slow_' num2str(FOI(3)) '_vs_spindle_' num2str(FOI(6))];
% figFileName = strrep(figFileName,'.','p');
% h = phaseHistPlot(edges, histMeanPhaseRelationSS(f,:), '# neurons', figFileName, visibility);
% close(h);
% end
%
% for f = 1:size(histMeanPhaseRelationSF,1)
% figFileName = [entryName '_' fWidth 'FreqPhaseRelation' '_spindle_' num2str(FOI(6)) '_vs_fast_' num2str(FOI(7))];
% figFileName = strrep(figFileName,'.','p');
% h = phaseHistPlot(edges, histMeanPhaseRelationSF(f,:), '# neurons', figFileName, visibility);
% close(h);
% end
for f = 1:numel(FOI)
figFileName = [entryName '_' fWidth 'FreqPhaseRelation' 'Spk' '_same_freq_' num2str(FOI(f))];
figFileName = strrep(figFileName,'.','p');
h = phaseHistPlot(edges, histMeanPhaseRelationSpk(f,:), '# neurons', figFileName, visibility);
close(h);
end
% for p = 1:size(phasePairsHT,1)
% figFileName = [entryName '_' fWidth 'PhaseCorr' 'Spk' '_freq_' num2str(FOI(phasePairsHT(p,1))) '_vs_' num2str(FOI(phasePairsHT(p,2)))];
% figFileName = strrep(figFileName,'.','p');
% rPlot(figure(figH(p)),'Correlation coef. r',figFileName);
%
% figFileName = [entryName '_' fWidth 'AbsPhaseCorr' 'Spk' '_freq_' num2str(FOI(phasePairsHT(p,1))) '_vs_' num2str(FOI(phasePairsHT(p,2)))];
% figFileName = strrep(figFileName,'.','p');
% rPlot(figure(figHD(p)),'Correlation coef. r',figFileName);
% end
if dbCount == numel(fnsData)
% histMeanPhaseRelationTotal = histMeanPhaseRelation;
histMeanPhaseRelationTotalSpk = histMeanPhaseRelationSpk;
else
% histMeanPhaseRelationTotal = histMeanPhaseRelationTotal + histMeanPhaseRelation;
histMeanPhaseRelationTotalSpk = histMeanPhaseRelationTotalSpk + histMeanPhaseRelationSpk;
end
end
end
% PLOT TOTAL CONCATENATED DATA AND SAVE GRAPHS
% for f = 1:numel(FOI)
% figFileName = [animal '_' fWidth 'FreqPhaseRelation' '_same_freq_' num2str(FOI(f))];
% figFileName = strrep(figFileName,'.','p');
% h = phaseHistPlot(edges, histMeanPhaseRelationTotal(f,:), '# units', figFileName, visibility);
% close(h);
% end
for f = 1:numel(FOI)
figFileName = [animal '_' fWidth 'FreqPhaseRelation' 'Spk' '_same_freq_' num2str(FOI(f))];
figFileName = strrep(figFileName,'.','p');
h = phaseHistPlot(edges, histMeanPhaseRelationTotalSpk(f,:), '# units', figFileName, visibility);
close(h);
end
function h = rPlot(h,yLabel,figFileName) %#ok<DEFNU>
% A helper function of AnHT_plot for plotting phase correlations.
yLim = ylim();
yTicks = get(gca,'yTick');
ax1 = axesProperties({}, 1, 'normal', 'off', 'w', 'Calibri', 25, 4/3, 2, [0.005 0], 'out',...
'off', 'k', {}, [0 2], [],...
'on', 'k', {yLabel}, yLim, yTicks);
label = [4 2.6];
margin = [0 1];
width = 2*15-label(1)-margin(1);
height = (2*15)/(2/1.25)-label(2)-margin(2);
paperSize = resizeFig(h, ax1, width, height, label, margin, 0);
exportFig(h, [figFileName '.png'],'-dpng','-r300', paperSize);
end