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process_duty_data.m
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process_duty_data.m
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function process_duty_data
naccelbeats = 4;
if (~getvar('duty','accpk','tailamp','per','cycletype','speed',...
'dutyerr','accpkerr','tailamperr','pererr') || ...
inputyn('Redo calculations?','default',false))
files = { 'rawdata/Bg9 Export_imu/Bg9_003.mat',...
'rawdata/Bg9 Export_imu/Bg9_004.mat',...
'rawdata/Bg9 Export_imu/Bg9_005.mat',...
'rawdata/Bg9 Export_imu/Bg9_006.mat',...
'rawdata/Bg9 Export_imu/Bg9_007.mat',...
'rawdata/Bg9 Export_imu/Bg9_008.mat',...
'rawdata/Bg9 Export_imu/Bg9_009.mat',...
'rawdata/Bg9 Export_imu/Bg9_010.mat',...
'rawdata/Bg9 Export_imu/Bg9_011.mat',...
'rawdata/Bg9 Export_imu/Bg9_012.mat',...
'rawdata/Bg9 Export_imu/Bg9_013.mat',...
'rawdata/Bg9 Export_imu/Bg9_014.mat',...
'rawdata/Bg9 Export_imu/Bg9_015.mat',...
'rawdata/Bg9 Export_imu/Bg9_016.mat',...
'rawdata/Bg9 Export_imu/Bg9_018.mat',...
'rawdata/Bg9 Export_imu/Bg9_019.mat',...
'rawdata/Bg9 Export_imu/Bg9_020.mat',...
'rawdata/Bg9 Export_imu/Bg9_021.mat',...
'rawdata/Bg9 Export_imu/Bg9_022.mat',...
'rawdata/Bg9 Export_imu/Bg9_024.mat',...
'rawdata/Bg9 Export_imu/Bg9_025.mat',...
'rawdata/Bg9 Export_imu/Bg9_027.mat',...
'rawdata/Bg9 Export_imu/Bg9_028.mat',...
'rawdata/Bg9 Export_imu/Bg9_029.mat'};
datafile = 'rawdata/Bg9 Export_imu/datafiles.mat';
burstdetectfile = 'burstdetect.mat';
load(datafile);
isacc = regexp(content,'[Aa]ccel', 'match','once');
isacc = cellfun(@(x) ~isempty(x), isacc);
issteady = regexp(content,'[Ss]teady', 'match','once');
issteady = cellfun(@(x) ~isempty(x), issteady);
ismixed = isacc & issteady;
isacc(ismixed) = false;
issteady(ismixed) = false;
duty = [];
dutyerr = [];
cycletype = [];
accpk = [];
accpkerr = [];
tailamp = [];
tailamperr = [];
per = [];
pererr = [];
speed2 = [];
for i = 1:length(files)
fprintf('%s...\n', files{i});
[pn,fn] = fileparts(files{i});
numstr = regexp(fn,'\d{3,3}','match');
filenum1 = str2double(numstr);
S1 = process_accel_data(files{i}, 'burstparams',burstdetectfile);
nchan = size(S1.burstduty,2);
k = find(filenum == filenum1);
for j = 1:length(k)
t1 = tstart(k(j));
t2 = tend(k(j));
ind = find((S1.tbeat >= t1) & (S1.tbeat <= t2));
if isacc(k(j))
duty1 = NaN(naccelbeats,nchan);
accpk1 = NaN(naccelbeats,1);
tailamp1 = NaN(naccelbeats,1);
per1 = NaN(naccelbeats,1);
cycletype1 = NaN(naccelbeats,1);
if (length(ind) > naccelbeats)
ind = ind(1:naccelbeats);
end
good = false(naccelbeats,1);
good(1:length(ind)) = true;
duty1(good,:) = S1.burstduty(ind,:);
dutyerr1 = NaN(size(duty1));
accpk1(good,:) = S1.accpk(ind,:);
accpkerr1 = NaN(size(accpk1));
tailamp1(good,:) = S1.tailamp(ind,:);
tailamperr1 = NaN(size(tailamp1));
per1(good,:) = S1.per(ind,:);
pererr1 = NaN(size(per1));
cycletype1(good) = 1:length(ind);
elseif issteady(k(j))
duty1 = nanmedian(S1.burstduty(ind,:));
dutyerr1 = iqr(S1.burstduty(ind,:));
accpk1 = nanmedian(S1.accpk(ind,:));
accpkerr1 = iqr(S1.accpk(ind,:));
tailamp1 = nanmedian(S1.tailamp(ind,:));
tailamperr1 = iqr(S1.tailamp(ind,:));
per1 = nanmedian(S1.per(ind,:));
pererr1 = iqr(S1.per(ind,:));
cycletype1 = 0;
end
duty = [duty; duty1];
dutyerr = [dutyerr; dutyerr1];
accpk = [accpk; accpk1];
accpkerr = [accpkerr; accpkerr1];
tailamp = [tailamp; tailamp1];
tailamperr = [tailamperr; tailamperr1];
per = [per; per1];
pererr = [pererr; pererr1];
cycletype = [cycletype; cycletype1];
speed2 = [speed2; speed(k(j)) * ones(size(cycletype1))];
end
end
speed = speed2;
putvar duty accpk tailamp per cycletype speed ...
dutyerr accpkerr tailamperr pererr;
end
chanpos = [1 2 2 3 3];
chanside = 'RLRLR';
cmap1 = hsv2rgb([0 0 0; 0.5 0.9 0.7; 0.8 0.9 0.7]);
colormap(cmap1);
figureseries('Duty1');
h = plotgroups(repmat(cycletype,[1 5]),duty,...
{repmat(chanpos,[size(cycletype,1) 1])},{'cmf'},...
'means','traces','on','error','std','xoff',0.08, ...
'MarkerSize',20,'errLineWidth',3);
legend(h,'anterior','posterior','peduncle');
xtick(0:4,{'steady','1','2','3','4'});
set(gca,'TickDir','out');
xlabel('Tail beat');
ylabel('Duty cycle');
figureseries('Duty2');
colormap(cmap1);
h = plotgroups(repmat(cycletype>0,[1 5]),duty,...
{repmat(chanpos,[size(cycletype,1) 1])},{'cmf'},...
'means','traces','on','error','std','xoff',0.08, ...
'MarkerSize',20,'errLineWidth',3);
legend(h,'anterior','posterior','peduncle');
xtick(0:1,{'steady','accel'});
set(gca,'TickDir','out');
ylabel('Duty cycle');
figureseries('Duty3');
cmap2 = hsv2rgb([0.6 0.9 0.7; 0.3 0.9 0.7; 0 0.9 0.7]);
colormap(cmap2);
good = speed < 2;
h = plotgroups(repmat(cycletype(good)>0,[1 2]),duty(good,4:5),...
{repmat(speed(good),[1 2])},{'cmf'},...
'means','traces','on','error','std','xoff',0.08, ...
'MarkerSize',20,'errLineWidth',3,'legend');
xtick(0:1,{'steady','accel'});
ylabel('Duty cycle');
set(gca,'TickDir','out');
figureseries('Accel');
plotgroups(cycletype,accpk/1000,'means','error','std',...
'color','k','markers','s','MarkerSize',20,'errLineWidth',3);
xtick(0:4,{'steady','1','2','3','4'});
set(gca,'TickDir','out');
xlabel('Tail beat');
ylabel('Acceleration (m s-1)');
xlim([-0.5 4.5]);
anovan(duty(:),{flatten(repmat(cycletype>0,[1 5])) flatten(repmat(speed,[1 5])) ...
flatten(repmat(chanpos,[size(cycletype,1) 1]))},'model','full',...
'varnames',{'type','speed','pos'});
good = speed < 2;
anovan(flatten(duty(good,4:5)),{flatten(repmat(cycletype(good)>0,[1 2])) ...
flatten(repmat(speed(good),[1 2]))},...
'model','full',...
'varnames',{'type','speed'});