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plot_concentrations_indiv_paper.m
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plot_concentrations_indiv_paper.m
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function plot_concentrations_indiv_paper(simfile,nrow,batchs)
load([simfile '.mat']);
ci=1;
names=data.ylabel;names2=names;
divi=1;divie=numel(names);
Names=names;Names2=names2;Names=replace(Names,{'Cells' 'Nh4' 'val' 'Gly'},{'Xv ' 'NH4' 'Val' 'Glyc'});
lis='ABCDEFGHIJKLMNOPQRSTUVWXYZ';
fwidth=20.5*0.85;
fheight=26*0.85;
xlabelheight=0.7;
ylabelwidth=2;
xspaceheight=0.5;
yspacewidth=0.5;
pheight=(fheight-xlabelheight-5.5*xspaceheight)/9;
pwidth=(fwidth-ylabelwidth-yspacewidth*3.2)/5.3;
% plot_rates_pos
Pos1=[ 16-(16-1)/4*4,24-(24-1.24)/7*0,2.60849056603774,2.07222222222222;
16-(16-1)/4*4,24-(24-1.24)/7*1,2.60849056603774,2.07222222222222;
16-(16-1)/4*4,24-(24-1.24)/7*2,2.60849056603774,2.07222222222222;
16-(16-1)/4*4,24-(24-1.24)/7*3,2.60849056603774,2.07222222222222;
16-(16-1)/4*4,24-(24-1.24)/7*4,2.60849056603774,2.07222222222222;
16-(16-1)/4*4,24-(24-1.24)/7*5,2.60849056603774,2.07222222222222;
16-(16-1)/4*4,24-(24-1.24)/7*6,2.60849056603774,2.07222222222222;
16-(16-1)/4*4,24-(24-1.24)/7*7,2.60849056603774,2.07222222222222];
Pos2=[ 16-(16-1)/4*3,24-(24-1.24)/7*0,2.60849056603774,2.07222222222222;
16-(16-1)/4*3,24-(24-1.24)/7*1,2.60849056603774,2.07222222222222;
16-(16-1)/4*3,24-(24-1.24)/7*2,2.60849056603774,2.07222222222222;
16-(16-1)/4*3,24-(24-1.24)/7*3,2.60849056603774,2.07222222222222;
16-(16-1)/4*3,24-(24-1.24)/7*4,2.60849056603774,2.07222222222222;
16-(16-1)/4*3,24-(24-1.24)/7*5,2.60849056603774,2.07222222222222;
16-(16-1)/4*3,24-(24-1.24)/7*6,2.60849056603774,2.07222222222222;
16-(16-1)/4*3,24-(24-1.24)/7*7,2.60849056603774,2.07222222222222];
Pos3=[ 16-(16-1)/4*2,24-(24-1.24)/7*0,2.60849056603774,2.07222222222222;
16-(16-1)/4*2,24-(24-1.24)/7*1,2.60849056603774,2.07222222222222;
16-(16-1)/4*2,24-(24-1.24)/7*2,2.60849056603774,2.07222222222222;
16-(16-1)/4*2,24-(24-1.24)/7*3,2.60849056603774,2.07222222222222;
16-(16-1)/4*2,24-(24-1.24)/7*4,2.60849056603774,2.07222222222222;
16-(16-1)/4*2,24-(24-1.24)/7*5,2.60849056603774,2.07222222222222;
16-(16-1)/4*2,24-(24-1.24)/7*6,2.60849056603774,2.07222222222222;
16-(16-1)/4*2,24-(24-1.24)/7*7,2.60849056603774,2.07222222222222];
Pos4=[ 16-(16-1)/4*1,24-(24-1.24)/7*0,2.60849056603774,2.07222222222222;
16-(16-1)/4*1,24-(24-1.24)/7*1,2.60849056603774,2.07222222222222;
16-(16-1)/4*1,24-(24-1.24)/7*2,2.60849056603774,2.07222222222222;
16-(16-1)/4*1,24-(24-1.24)/7*3,2.60849056603774,2.07222222222222;
16-(16-1)/4*1,24-(24-1.24)/7*4,2.60849056603774,2.07222222222222;
16-(16-1)/4*1,24-(24-1.24)/7*5,2.60849056603774,2.07222222222222;
16-(16-1)/4*1,24-(24-1.24)/7*6,2.60849056603774,2.07222222222222;
16-(16-1)/4*1,24-(24-1.24)/7*7,2.60849056603774,2.07222222222222];
Pos5=[16-(16-1)/4*0,24-(24-1.24)/7*0,2.60849056603774,2.07222222222222;
16-(16-1)/4*0,24-(24-1.24)/7*1,2.60849056603774,2.07222222222222;
16-(16-1)/4*0,24-(24-1.24)/7*2,2.60849056603774,2.07222222222222;
16-(16-1)/4*0,24-(24-1.24)/7*3,2.60849056603774,2.07222222222222;
16-(16-1)/4*0,24-(24-1.24)/7*4,2.60849056603774,2.07222222222222;
16-(16-1)/4*0,24-(24-1.24)/7*5,2.60849056603774,2.07222222222222;
16-(16-1)/4*0,24-(24-1.24)/7*6,2.60849056603774,2.07222222222222;
16-(16-1)/4*0,24-(24-1.24)/7*7,2.60849056603774,2.07222222222222];
Pos10=Pos1;Pos20=Pos2;Pos30=Pos3;Pos40=Pos4;Pos50=Pos5;
% normalize conc
y=[];ysim=[];
for ib=batchs
y=[y;data.batch(ib).y];ysim=[ysim;data.batch(ib).ysim];
end
for ib=batchs
data.batch(ib).y=data.batch(ib).y./max(y);
data.batch(ib).ysim=data.batch(ib).ysim./max(ysim);
end
for ic=1:ci
Pos1=Pos10;Pos2=Pos20;Pos3=Pos30;Pos4=Pos40;Pos5=Pos50;
names=Names(divi(ic):divie(ic));names2=Names2(divi(ic):divie(ic));
max_c=7-ceil(numel(names)/nrow)+2;
Pos1=Pos1(max_c:end,:);Pos2=Pos2(max_c:end,:);Pos3=Pos3(max_c:end,:);Pos4=Pos4(max_c:end,:);Pos5=Pos5(max_c:end,:);
hFig = figure;
set(hFig, 'Color', 'w',...
'paperpositionmode', 'auto',...
'paperunits', 'centimeters',...
'paperposition', [0.5 1. 31*0.86 40*0.85],...
'units', 'centimeters',...
'position', [0.5 1.5 17.5*0.86 27.2*0.85]);
%[0,0.64,1]=[0,0.8,0.8];
fwidth=20.5*0.85;
fheight=26*0.85;
xlabelheight=0.7;
ylabelwidth=2;
xspaceheight=0.5;
yspacewidth=0.5;
pheight=(fheight-xlabelheight-5.5*xspaceheight)/9;
pwidth=(fwidth-ylabelwidth-yspacewidth*3.2)/5.3;
id=0;
np=numel(names);
train=[];test=[];
for ib=batchs
if data.batch(ib).istrain==1
train=[train ib];
else
test=[test ib];
end
end
try
for i=1:7 % rows
maxys=[];maxxs=[];
for row=1:nrow %coolumns
if row==1; position=Pos1(i,:);elseif row==2;position=Pos2(i,:);elseif row==3;position=Pos3(i,:);elseif row==4;position=Pos4(i,:);else; position=Pos5(i,:);end
id=id+1;if id>np;error;end
hAx1t=axes('Parent', hFig,'XColor',[1 1 1],'YColor',[1 1 1 ]);
set(hAx1t,'Units','centimeters','position',position,'YTickLabel',[],'XTickLabel',[]);
hAx1=axes('Parent', hFig,'Color','none');
hold(hAx1,'on');hold on;
maxy1=-inf;miny1=inf; maxx1=-inf;minx1=inf;
x1=[];x2=[];y1=[];y2=[];
for ib=batchs
x = data.batch(ib).y(:,id);
y = data.batch(ib).ysim(:,id);
maxy1=max([maxy1;y]);miny1=min([miny1;y]);maxx1=max([maxx1;x]);minx1=min([minx1;x]);
if data.batch(ib).istrain==1
x1=[x1;x];y1=[y1;y];
trainingPlot = plot(x,y,...
'MarkerSize',5,'Color','#0080ff','Marker','.','LineStyle','none','MarkerSize',12,'HandleVisibility','off');
elseif data.batch(ib).istrain==2
% testPlot = plot(x,y,...
% 'MarkerSize',5,'Color','#2bbf5c','Marker','x','LineStyle','none','MarkerSize',10);
end
end
maxys(row)=maxy1;maxxs(row)=maxx1;
if ~isempty (y1)
mod=fitlm(x1,y1,'linear','RobustOpts','off');
R2_tr=mod.Rsquared;
end
% plot(x1(1),y1(2),'Marker','.','LineStyle','none','MarkerSize',12,'Color','#0080ff', 'HandleVisibility','on');
for ib=batchs
x = data.batch(ib).y(:,id);
y = data.batch(ib).ysim(:,id);
% maxy1=max([maxy1;y]);miny1=min([miny1;y]);maxx1=max([maxx1;x]);minx1=min([minx1;x]);
if data.batch(ib).istrain==1
% trainingPlot = plot(x,y,...
% 'MarkerSize',5,'Color','#0080ff','Marker','.','LineStyle','none','MarkerSize',12);
elseif data.batch(ib).istrain==2
x2=[x2;x];y2=[y2;y];
testPlot = plot(x,y,...
'MarkerSize',5,'Color','#2bbf5c','Marker','.','LineStyle','none','MarkerSize',6,'HandleVisibility','off');
end
end
if ~isempty(y2)
% plot(x2(1),y2(2),'Marker','.','LineStyle','none','MarkerSize',12,'Color','#2bbf5c', 'HandleVisibility','on');
mod=fitlm(x2,y2,'linear','RobustOpts','off');
R2_tt=mod.Rsquared;
else
R2_tt.Ordinary=inf;
end
if id==np
il=[];
if ~isempty(train)
il=[il 1];
x = data.batch(ib).y(:,id);
y = data.batch(ib).ysim(:,id);
trainingPlot = plot(x,y,...
'MarkerSize',5,'Color','#0080ff','Marker','.','LineStyle','none','MarkerSize',12,'HandleVisibility','on');
end
if ~isempty(test)
il=[il 2];
x = data.batch(ib).y(:,id);
y = data.batch(ib).ysim(:,id);
testPlot = plot(x,y,...
'MarkerSize',5,'Color','#2bbf5c','Marker','.','LineStyle','none','MarkerSize',12,'HandleVisibility','on');
end
lg={'train' 'test'};
legend(lg(il),'Location', 'north','FontSize',7,'FontName','Arial')
end
% miny1=miny1-0.1;maxy1=maxy1+0.1;
% minx1=minx1-0.1;maxx1=maxx1+0.1;
miny1=0-0.15;maxy1=1+0.15;
minx1=0-0.15;maxx1=1+0.15;
if strcmp(Names(id),'Cys')
% 1;
% miny1=-0.35;maxy1=1.16;
% minx1=-0.36;maxx1=1.2;
elseif strcmp(Names(id),'Pro')
% 1;
% miny1=1.5;maxy1=5.5;
% minx1=1.5;maxx1=5.5;
end
ylim(hAx1,[ min([miny1 minx1]) max([maxy1 maxx1])*1.])
xlim(hAx1,[ min([miny1 minx1]) max([maxy1 maxx1])]*1.)
line([ min([miny1 minx1]) max([maxy1 maxx1])]*1.,[ min([miny1 minx1]) max([maxy1 maxx1])*1.],'color',[.75 0.75 0.75],'HandleVisibility','off');
axis square
% if np-id>nrow-1
set(hAx1,'Units','centimeters','position',position,'Box','on','YMinorGrid','off','XMinorGrid','off','FontSize',7,'FontName','Arial');hold on;
% else
% set(hAx1,'Units','centimeters','position',position,'Box','on','YMinorGrid','off','XMinorGrid','off','FontSize',7,'FontName','Arial');hold on;
%
% end
hAx = gca; % handle to current axes
n=names2{id};
set(gca,'FontSize',7);
yrange=max([maxy1 maxx1])-min([miny1 minx1]);
xrange=max([maxy1 maxx1])-min([miny1 minx1]);
% text(min([miny1 minx1])+xrange*0.75,min([miny1 minx1])+yrange*1,[lis((i)) num2str(row) ' '],'HorizontalAlignment','right','VerticalAlignment','top','FontSize',8,'FontName','Arial','FontWeight','bold')
xlabel('Experimental','FontSize',8,'FontName','Arial','FontWeight','bold');
ylabel('Predicted','FontSize',8,'FontName','Arial','FontWeight','bold');
text(min([miny1 minx1])*1.1+xrange*0.95,min([miny1 minx1])+yrange*0.2,Names(id),'HorizontalAlignment','right','VerticalAlignment','top','FontSize',9,'FontName','Arial','FontWeight','bold')
if ~isempty (y1)
plot(min([miny1 minx1])+xrange*0.06,min([miny1 minx1])+yrange*0.9, 'MarkerSize',5,'Color','#0080ff','Marker','.','LineStyle','none','MarkerSize',12,'HandleVisibility','off')
text(min([miny1 minx1])+xrange*0.55,min([miny1 minx1])+yrange*0.97,['R^{2}: ' num2str(R2_tr.Ordinary,'%.2f') ],'HorizontalAlignment','right','VerticalAlignment','top','FontSize',6.,'FontName','Arial','FontWeight','bold')
end
if ~isempty (y2)
plot(min([miny1 minx1])+xrange*0.06,min([miny1 minx1])+yrange*0.75,'MarkerSize',5,'Color','#2bbf5c','Marker','.','LineStyle','none','MarkerSize',12,'HandleVisibility','off')
text(min([miny1 minx1])+xrange*0.55,min([miny1 minx1])+yrange*0.82,['R^{2}: ' num2str(R2_tt.Ordinary,'%.2f') ],'HorizontalAlignment','right','VerticalAlignment','top','FontSize',6.,'FontName','Arial','FontWeight','bold')
end
try; patchline([min([miny1 minx1]) max([maxy1 maxx1]) ], [min([miny1 minx1]) max([maxy1 maxx1])],'edgecolor','k','linewidth',1,'edgealpha',0.1,'HandleVisibility','off');catch;end
set(gca,'FontWeight','bold')
end
% if ic>1 && i==5
% 6;
% end
% ids=(i-1)*row+1:(i-1)*row+row;
end
catch kl
1
end
end