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added preprocessing functions for eye, accel, and photodiode; clarifi…
…ed runAnalysis calling syntax
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| Original file line number | Diff line number | Diff line change |
|---|---|---|
| @@ -0,0 +1,17 @@ | ||
| function [ analogInData ] = preprocessAccelSignals( analogInData,params ) | ||
| %Applies volts to m/s^2 conversion for accelerometer signals. | ||
| % - Optionally: applies coordinate system conversion based on calibration runs (not yet implemented) | ||
| % Note: supports multiple accelerometers | ||
| if ~params.needAccelCal | ||
| return | ||
| end | ||
| assert(~any(strcmp(params.calMethods,'calFile')),'Requested file-based accelerometer calibration; not yet implemented'); | ||
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| for accel_i = 1:length(params.accelChannels) | ||
| analogInData(params.accelChannels{accel_i}) = analogInData(params.accelChannels{accel_i}) - mean(analogInData(params.accelChannels{accel_i}),2); | ||
| analogInData(params.accelChannels{accel_i}) = params.channelGains{accel_i} .* analogInData(params.accelChannels{accel_i}); | ||
| end | ||
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| end | ||
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| Original file line number | Diff line number | Diff line change |
|---|---|---|
| @@ -0,0 +1,91 @@ | ||
| function [ analogInData ] = preprocessEyeSignals( analogInData,taskData,params ) | ||
| %UNTITLED Summary of this function goes here | ||
| % Detailed explanation goes here | ||
| if ~params.needEyeCal | ||
| return | ||
| end | ||
| calibMethod = params.method; | ||
| gainX = params.gainX; | ||
| gainY = params.gainY; | ||
| flipY = params.flipY; | ||
| flipX = params.flipX; | ||
| if strcmp(calibMethod,'hardcodeZero') | ||
| offsetX = params.offsetX; | ||
| offsetY = params.offsetY; | ||
| end | ||
| if strcmp(calibMethod, 'zeroEachFixation') | ||
| minFixZeroTime = params.minFixZeroTime; | ||
| end | ||
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| eyeX = analogInData(params.eyeXChannelInd,:); | ||
| eyeY = analogInData(params.eyeYChannelInd,:); | ||
| eyeD = analogInData(params.eyeDChannelInd,:); | ||
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| fixInInds = zeros(size(eyeX)); | ||
| transitionInInds = zeros(size(eyeX)); | ||
| transitionOutInds = zeros(size(eyeX)); | ||
| for fix_i = 1:length(taskData.fixationInTimes) | ||
| assert(all(taskData.fixationOutTimes > taskData.fixationInTimes)); | ||
| fixInInds(ceil(taskData.fixationInTimes(fix_i)):(floor(taskData.fixationOutTimes(fix_i))-10)) = 1; | ||
| transitionInInds(ceil(taskData.fixationInTimes(fix_i))) = 1; | ||
| transitionOutInds(floor(taskData.fixationOutTimes(fix_i))-10) = 1; | ||
| end | ||
| eyeX = gainX*eyeX*(-1*flipX + ~flipX); | ||
| eyeY = gainY*eyeY*(-1*flipY + ~flipY); | ||
| if strcmp(calibMethod,'autoZeroSingle') | ||
| eyeX = eyeX - mean(eyeX(fixInInds == 1)); | ||
| eyeY = eyeY - mean(eyeY(fixInInds == 1)); | ||
| end | ||
| if strcmp(calibMethod,'zeroEachFixation') | ||
| for fix_i = 1:length(taskData.fixationInTimes) | ||
| if fix_i == 1 || (taskData.fixationOutTimes(fix_i) - taskData.fixationInTimes(fix_i)) > minFixZeroTime | ||
| offsetX = mean(eyeX(ceil(taskData.fixationInTimes(fix_i)):(floor(taskData.fixationOutTimes(fix_i))-10))); | ||
| offsetY = mean(eyeY(ceil(taskData.fixationInTimes(fix_i)):(floor(taskData.fixationOutTimes(fix_i))-10))); | ||
| end | ||
| if fix_i < length(taskData.fixationInTimes) | ||
| eyeX(ceil(taskData.fixationInTimes(fix_i)):floor(taskData.fixationInTimes(fix_i+1))) = ... | ||
| eyeX(ceil(taskData.fixationInTimes(fix_i)):floor(taskData.fixationInTimes(fix_i+1))) - offsetX; | ||
| eyeY(ceil(taskData.fixationInTimes(fix_i)):floor(taskData.fixationInTimes(fix_i+1))) = ... | ||
| eyeY(ceil(taskData.fixationInTimes(fix_i)):floor(taskData.fixationInTimes(fix_i+1))) - offsetY; | ||
| else | ||
| eyeX(ceil(taskData.fixationInTimes(fix_i)):end) = eyeX(ceil(taskData.fixationInTimes(fix_i)):end) - offsetX; | ||
| eyeY(ceil(taskData.fixationInTimes(fix_i)):end) = eyeY(ceil(taskData.fixationInTimes(fix_i)):end) - offsetY; | ||
| end | ||
| end | ||
| end | ||
| if strcmp(calibMethod,'hardcodeZero') | ||
| eyeX = eyeX - offsetX; | ||
| eyeY = eyeY - offsetY; | ||
| end | ||
| if strcmp(calibMethod, 'ninePoint') | ||
| error('ninePoint eye calibration not yet implemented'); | ||
| end | ||
| eyeD = eyeD - mean(eyeD(fixInInds == 1)); | ||
| fixInX = eyeX(fixInInds == 1); | ||
| fixInY = eyeY(fixInInds == 1); | ||
| fixInD = eyeD(fixInInds == 1); | ||
| if params.makePlots | ||
| figure() | ||
| scatter(fixInX,fixInY,1,'b'); | ||
| hold on | ||
| scatter(eyeX(~fixInInds),eyeY(~fixInInds),1,'r') | ||
| figure() | ||
| scatter(eyeX(transitionInInds == 1),eyeY(transitionInInds == 1),20,'b'); | ||
| hold on | ||
| scatter(eyeX(transitionOutInds == 1),eyeY(transitionOutInds == 1),20,'r'); | ||
| figure() | ||
| histogram(fixInD,100,'Normalization','pdf'); | ||
| hold on | ||
| histogram(eyeD(~fixInInds),100,'Normalization','pdf'); | ||
| title('eyeD') | ||
| legend({'In','Out'}); | ||
| figure() | ||
| a1 = subplot(1,2,1); | ||
| histogram2(fixInX',fixInY',[50 50],'Normalization','probability','DisplayStyle','tile','BinMethod','integer'); | ||
| a2 = subplot(1,2,2); | ||
| histogram2(eyeX(~fixInInds)',eyeY(~fixInInds)',[50 50],'Normalization','probability','DisplayStyle','tile','BinMethod','integer'); | ||
| end | ||
| analogInData(params.eyeXChannelInd,:) = eyeX; | ||
| analogInData(params.eyeYChannelInd,:) = eyeY; | ||
| end | ||
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| Original file line number | Diff line number | Diff line change |
|---|---|---|
| @@ -0,0 +1,10 @@ | ||
| function [ analogInData ] = preprocessPhotodiodeStrobe( analogInData, params ) | ||
| %preprocessPhotodiodeStrobe cleans a photodiode signal | ||
| % Detailed explanation goes here | ||
| if ~params.needPhotodiode | ||
| return | ||
| end | ||
| error('photodiode strobe preprocessing not yet implemented'); | ||
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| end | ||
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