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plot_figure_1.m
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plot_figure_1.m
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function plot_figure_1
%% spikes
figure
color_1=[0 0 0] ;
color_2=[243/255 152/255 129/255]; %fenfluramine
color_3=[234/255 82/255 126/255]; %MDMA
hold on
%control
path="C:\Users\Roberto\Documents\De_Filippo_et_al_2021\Figure 1\control";
n={};
n{end+1} = fullfile(path,"1");
n{end+1}=fullfile(path,"2");
n{end+1} = fullfile(path,"3");
n{end+1} = fullfile(path,"4");
n{end+1} = fullfile(path,"5");
spikesovertimesum=[];
rec_length=30;%minutes
for i=1:numel(n)
cd (n{i});
sp = loadKSdir(pwd);
[spikesovertime,edges] = histcounts(sp.st,0:60:rec_length*60);
spikesovertime=spikesovertime/mean(spikesovertime(1:5));
spikesovertime=interp(spikesovertime,20);
spikesovertimesum(i,:)=spikesovertime;
end
shadedErrorBar(1:numel (spikesovertimesum(1,:)),nanmean( spikesovertimesum),...
nanstd( spikesovertimesum)/sqrt(numel( spikesovertimesum(:,1))),'lineprops',{'color', color_1})
%fenf
path="C:\Users\Roberto\Documents\De_Filippo_et_al_2021\Figure 1\fenfluramine";
n={};
n{end+1} = fullfile(path,"1");
n{end+1}=fullfile(path,"2");
n{end+1} = fullfile(path,"3");
n{end+1} = fullfile(path,"4");
n{end+1} = fullfile(path,"5");
n{end+1} = fullfile(path,"6");
spikesovertimesum=[];
for i=1:numel(n)
cd (n{i});
%
sp = loadKSdir(pwd);
[spikesovertime,edges] = histcounts(sp.st,0:60:rec_length*60);
spikesovertime=spikesovertime/mean(spikesovertime(1:5));
spikesovertime=interp(spikesovertime,20);
spikesovertimesum(i,:)=spikesovertime;
end
shadedErrorBar(1:numel (spikesovertimesum(1,:)),nanmean( spikesovertimesum),...
nanstd( spikesovertimesum)/sqrt(numel( spikesovertimesum(:,1))),'lineprops',{'color', color_2})
%MDMA
path="C:\Users\Roberto\Documents\De_Filippo_et_al_2021\Figure 1\mdma";
n={};
n{end+1} = fullfile(path,"1");
n{end+1}=fullfile(path,"2");
n{end+1} = fullfile(path,"3");
n{end+1} = fullfile(path,"4");
n{end+1} = fullfile(path,"5");
n{end+1} = fullfile(path,"6");
n{end+1} = fullfile(path,"7");
spikesovertimesum=[];
for i=1:numel(n)
cd (n{i});
sp = loadKSdir(pwd);
[spikesovertime,edges] = histcounts(sp.st,0:60:rec_length*60);
spikesovertime=spikesovertime/mean(spikesovertime(1:5));
spikesovertime=interp(spikesovertime,20);
spikesovertimesum(i,:)=spikesovertime;
end
shadedErrorBar(1:numel (spikesovertimesum(1,:)),nanmean( spikesovertimesum),...
nanstd( spikesovertimesum)/sqrt(numel( spikesovertimesum(:,1))),'lineprops',{'color', color_3})
xlim([0 max(xlim)/30*25])
ylim([0 2])
xticks(0:100:600)
xticklabels(0:5:30)
yticks(0:0.5:2)
yticklabels(0:0.5:30)
ylabel('Normalized spike rate')
xlabel('Time (min)')
makepretty(2)
set(findobj(gcf,'type','axes'),'FontName','Swis721 BT','FontSize',10,'FontWeight','Bold', 'LineWidth', 1.5);
plot([100 100],[0 max(ylim)],'--','Color',[245/255 1/255 1/255],'LineWidth', 1.5)
%% upstates
figure
hold on
% control
path="C:\Users\Roberto\Documents\De_Filippo_et_al_2021\Figure 1\control";
n1 = load(fullfile(path,"1","analysiss"),'rec_lenght','ii1','ii2','ii3','ii4','spikeStruct' ,'XY');
n2 = load(fullfile(path,"2","analysiss"),'rec_lenght','ii1','ii2','ii3','ii4','spikeStruct' ,'XY');
n3 = load(fullfile(path,"3","analysiss"),'rec_lenght','ii1','ii2','ii3','ii4','spikeStruct' ,'XY');
n4 = load(fullfile(path,"4","analysiss"),'rec_lenght','ii1','ii2','ii3','ii4','spikeStruct' ,'XY');
n5 = load(fullfile(path,"5","analysiss"),'rec_lenght','ii1','ii2','ii3','ii4','spikeStruct' ,'XY');
FINAL=[];
FINAL=[n1 n2 n3 n4 n5];
FINAL=clean_from_noisy_events(FINAL);
f=200;
rec_length=30;
FINAL_processed=process_FINAL (FINAL);
upstatesovertimeS=[];
for i=1:numel(FINAL_processed)
[upstatesovertime,edges] = histcounts(FINAL_processed(i).ii1,1:f*60:rec_length*60*f);
upstatesovertime=interp(upstatesovertime,20);
upstatesovertimeS(i,:)=upstatesovertime;
end
shadedErrorBar(1:numel (upstatesovertimeS(1,:)),nanmean( upstatesovertimeS),...
nanstd( upstatesovertimeS)/sqrt(numel( upstatesovertimeS(:,1))),'lineprops',{'color', color_1})
%fenfl
path="C:\Users\Roberto\Documents\De_Filippo_et_al_2021\Figure 1\fenfluramine";
n1 = load(fullfile(path,"1","analysiss"),'rec_lenght','ii1','ii2','ii3','ii4','spikeStruct' ,'XY');
n2 = load(fullfile(path,"2","analysiss"),'rec_lenght','ii1','ii2','ii3','ii4','spikeStruct' ,'XY');
n3 = load(fullfile(path,"3","analysiss"),'rec_lenght','ii1','ii2','ii3','ii4','spikeStruct' ,'XY');
n4 = load(fullfile(path,"4","analysiss"),'rec_lenght','ii1','ii2','ii3','ii4','spikeStruct' ,'XY');
n5 = load(fullfile(path,"5","analysiss"),'rec_lenght','ii1','ii2','ii3','ii4','spikeStruct' ,'XY');
n6 = load(fullfile(path,"6","analysiss"),'rec_lenght','ii1','ii2','ii3','ii4','spikeStruct' ,'XY');
FINAL=[];
FINAL=[ n1 n2 n3 n4 n5 n6];
FINAL=clean_from_noisy_events(FINAL);
f=200;
FINAL_processed=FINAL;
FINAL_processed=process_FINAL (FINAL_processed);
upstatesovertimeS=[];
for i=1:numel(FINAL_processed)
[upstatesovertime,edges] = histcounts(FINAL_processed(i).ii1,1:f*60:rec_length*60*f);
upstatesovertime=interp(upstatesovertime,20);
upstatesovertimeS(i,:)=upstatesovertime;
end
shadedErrorBar(1:numel (upstatesovertimeS(1,:)),nanmean( upstatesovertimeS),...
nanstd( upstatesovertimeS)/sqrt(numel( upstatesovertimeS(:,1))),'lineprops',{'color', color_2})
%
% MDMA 1.25 mg/kg
path="C:\Users\Roberto\Documents\De_Filippo_et_al_2021\Figure 1\mdma";
n1 = load(fullfile(path,"1","analysiss"),'rec_lenght','ii1','ii2','ii3','ii4','spikeStruct' ,'XY');
n2 = load(fullfile(path,"2","analysiss"),'rec_lenght','ii1','ii2','ii3','ii4','spikeStruct' ,'XY');
n3 = load(fullfile(path,"3","analysiss"),'rec_lenght','ii1','ii2','ii3','ii4','spikeStruct' ,'XY');
n4 = load(fullfile(path,"4","analysiss"),'rec_lenght','ii1','ii2','ii3','ii4','spikeStruct' ,'XY');
n5 = load(fullfile(path,"5","analysiss"),'rec_lenght','ii1','ii2','ii3','ii4','spikeStruct' ,'XY');
n6 = load(fullfile(path,"6","analysiss"),'rec_lenght','ii1','ii2','ii3','ii4','spikeStruct' ,'XY');
n7 = load(fullfile(path,"7","analysiss"),'rec_lenght','ii1','ii2','ii3','ii4','spikeStruct' ,'XY');
FINAL=[];
FINAL=[ n1 n2 n3 n4 n5 n6 n7];
FINAL=clean_from_noisy_events(FINAL);
f=200;
FINAL_processed=FINAL;
FINAL_processed=process_FINAL (FINAL_processed);
upstatesovertimeS=[];
for i=1:numel(FINAL_processed)
[upstatesovertime,edges] = histcounts(FINAL_processed(i).ii1,1:f*60:rec_length*60*f);
upstatesovertime=interp(upstatesovertime,20);
upstatesovertimeS(i,:)=upstatesovertime;
end
shadedErrorBar(1:numel (upstatesovertimeS(1,:)),nanmean( upstatesovertimeS),...
nanstd( upstatesovertimeS)/sqrt(numel( upstatesovertimeS(:,1))),'lineprops',{'color', color_3})
xlim([0 max(xlim)/30*25])
ylim([0 max(ylim)])
xticks(0:100:600)
xticklabels(0:5:30)
yticks(0:5:20)
ylabel('Upstates/min')
xlabel('Time (min)')
makepretty(2)
set(findobj(gcf,'type','axes'),'FontName','Swis721 BT','FontSize',10,'FontWeight','Bold', 'LineWidth', 1.5);
plot([100 100],[0 max(ylim)],'--','Color',[245/255 1/255 1/255],'LineWidth', 1.5)