plateform stringclasses 1
value | repo_name stringlengths 13 113 | name stringlengths 3 74 | ext stringclasses 1
value | path stringlengths 12 229 | size int64 23 843k | source_encoding stringclasses 9
values | md5 stringlengths 32 32 | text stringlengths 23 843k |
|---|---|---|---|---|---|---|---|---|
github | isetbio/isetbio-master | generateRTVFobjects.m | .m | isetbio-master/isettools/ganglioncells/@midgetRGCMosaic/generateRTVFobjects.m | 8,095 | utf_8 | 2c8140a4fb175fa7b2c3ee68155a6df3 | function [RTVFTobjList, ...
theSamplingPositionGrid, ...
theConesNumPooledByTheRFcenterGrid, ...
theVisualSTFSurroundToCenterRcRatioGrid, ...
theVisualSTFSurroundToCenterIntegratedSensitivityRatioGrid] = generateRTVFobjects(...
ZernikeDataBase, subjectRankOrder... |
github | isetbio/isetbio-master | R2VFTobjects.m | .m | isetbio-master/isettools/ganglioncells/@midgetRGCMosaic/R2VFTobjects.m | 10,119 | utf_8 | bb3fcca719beee602f07cda45fce7f26 | function R2VFTobjects(...
RTVobjIndicesToBeComputed, ...
theMidgetRGCMosaic, ...
eccentricitySamplingGrid, ...
rfModelParams, opticsParams, fitParams)
ZernikeDataBase = opticsParams.ZernikeDataBase;
subjectRankOrder = opticsParams.... |
github | isetbio/isetbio-master | visualize.m | .m | isetbio-master/isettools/ganglioncells/@midgetRGCMosaic/visualize.m | 18,563 | utf_8 | 55e7ceca57aa1045429444d4ef502bb8 | function [figureHandle, axesHandle] = visualize(obj, varargin)
% Parse input
p = inputParser;
p.addParameter('figureHandle', [], @(x)(isempty(x)||isa(x, 'handle')));
p.addParameter('axesHandle', [], @(x)(isempty(x)||isa(x, 'handle')));
p.addParameter('eccentricitySamplingGrid', [], @(x)(isempty(x) ... |
github | isetbio/isetbio-master | cropRGCsOnTheBorder.m | .m | isetbio-master/isettools/ganglioncells/@midgetRGCMosaic/cropRGCsOnTheBorder.m | 1,356 | utf_8 | 80ec2830cdf7be7f301292937872047d | function cropRGCsOnTheBorder(obj)
% Remove RGC RFs on the margins
indicesOfRGCRFsToKeep = findRGCRFsWithinBorders(obj.rgcRFpositionsMicrons, obj.rgcRFspacingsMicrons);
% Update rf center connectivity matrix & rgcRFpositionsMicrons
obj.rgcRFcenterConeConnectivityMatrix = obj.rgcRFcenterConeConnecti... |
github | isetbio/isetbio-master | configure.m | .m | isetbio-master/isettools/ganglioncells/+retinalattice/configure.m | 4,698 | utf_8 | c8b7461645d84e5f3f743833d45fb67d | function p = configure(sourceLatticeSizeDegs, neuronType, whichEye)
% Validate input
validNeuronTypes = retinalattice.validvalues.neuronTypes;
validEyes = retinalattice.validvalues.eyes;
assert(ismember(neuronType, validNeuronTypes), sprintf('Unknown neuron type: ''%s''.', neuronType));
assert... |
github | isetbio/isetbio-master | generatePatch.m | .m | isetbio-master/isettools/ganglioncells/+retinalattice/generatePatch.m | 3,849 | utf_8 | c1a640875598adf45aaac1ab2bc2e4a1 | function bestQualityRFpositions = generatePatch(fovDegs, neuronType, whichEye, exportHistoryToFile, visualizeConvergence, useParfor, maxIterations, varargin)
p = inputParser;
p.addParameter('randomSeed', [], @(x)(isempty(x) || isscalar(x)));
p.addParameter('customDegsToMMsConversionFunction', [], @(x) ... |
github | isetbio/isetbio-master | savePositionsAtIteration.m | .m | isetbio-master/isettools/ganglioncells/+retinalattice/savePositionsAtIteration.m | 1,525 | utf_8 | 10edd43afceb1d93d01666c0d2afcf01 | % Visualizes the progression of the mosaic (quality and max movement) and
% saves the lattice positions at the desired iteration
function savePositionsAtIteration(fovDegs, neuronType, whichEye)
% Configure algorithm params
p = retinalattice.configure(fovDegs, neuronType, whichEye);
mosaicProgressFileName =... |
github | isetbio/isetbio-master | initialize.m | .m | isetbio-master/isettools/ganglioncells/+retinalattice/initialize.m | 3,913 | utf_8 | 057f9b220d316744ea96a21848423ce6 | function [rfPositionsMicrons, radiusMicrons] = initialize(fovDegs, whichEye, params, useParfor, tStart, varargin)
p = inputParser;
p.addParameter('customDegsToMMsConversionFunction', [], @(x)(isempty(x) || isa(x,'function_handle')));
p.parse(varargin{:});
customDegsToMMsConversionFunction = p.Results.c... |
github | isetbio/isetbio-master | smoothGrid.m | .m | isetbio-master/isettools/ganglioncells/+retinalattice/+compute/smoothGrid.m | 7,417 | utf_8 | afb715ca64ce23e5c1afd73f6ce99a26 | function dataOut = smoothGrid(rfPositions, ...
tabulatedEcc, tabulatedRFspacing, params, visualizeConvergence, tStart, varargin)
p = inputParser;
p.addParameter('useParfor', false, @islogical);
p.parse(varargin{:});
useParfor = p.Results.useParfor;
% Turn off Delaunay triangularization... |
github | isetbio/isetbio-master | rfSpacingLookUpTables.m | .m | isetbio-master/isettools/ganglioncells/+retinalattice/+compute/rfSpacingLookUpTables.m | 1,577 | utf_8 | 145661c172360bc64c69d3ccda1f9b72 | function [tabulatedRFspacingMicrons, tabulatedEccXYMicrons] = ...
rfSpacingLookUpTables(rfPositionsMicrons, whichEye, useParfor, rfSpacingExactFunction, lookUpTableSamplesNum)
% Compute radial sampling vector of retinal positions that we need to compute spacings for
eccMicrons = logSamplingVectorFromSc... |
github | isetbio/isetbio-master | croppedPositions.m | .m | isetbio-master/isettools/ganglioncells/+retinalattice/+compute/croppedPositions.m | 655 | utf_8 | 8d59db8ebd9ba19be52e21370bc26045 |
function rfPositionsMicrons = croppedPositions(rfPositionsMicrons, eccMicrons, sizeMicrons)
if (numel(sizeMicrons) == 1)
sizeMicrons = sizeMicrons*[1 1];
end
if (numel(eccMicrons) == 1)
eccMicrons = eccMicrons*[1 1];
end
xRange = eccMicrons(1) + 0.5*sizeMicrons(1)*[-1 1];
yRang... |
github | isetbio/isetbio-master | benchmarkCmosaic.m | .m | isetbio-master/isettools/ganglioncells/demos/benchmarkCmosaic.m | 14,482 | utf_8 | f780458d6df4f291cb08765f2616bbdc | function benchmarkCmosaic
% Mosaic options
varyMPdensity = true;
varyApertureAndOSlength = true;
doIt('old', varyMPdensity, varyApertureAndOSlength);
doIt('new', varyMPdensity, varyApertureAndOSlength);
end
function doIt(env, varyMPdensity, varyApertureAndOSlength)
integrationTime = ... |
github | isetbio/isetbio-master | testLatticeGenerator.m | .m | isetbio-master/isettools/ganglioncells/demos/testLatticeGenerator.m | 1,226 | utf_8 | 8e86afb00d73e257b8cde70eb56fce22 | % Function to either generate a lattice or save the lattice at some point
% in its progression.
function testLatticeGenerator
fovDegs = 60;
exportHistoryToFile = true;
visualizeConvergence = true;
useParfor = true;
maxIterations = 8000;
neuronType = 'midget ganglion cells'; % Select from { 'con... |
github | isetbio/isetbio-master | testCmosaic.m | .m | isetbio-master/isettools/ganglioncells/demos/testCmosaic.m | 29,049 | utf_8 | fe4f6835aa6e6c9700108345b6046f11 | function testCmosaic
% Mosaic size and ecc
simulationFOVdegs = [1 1];
simulationEccDegs = [0.2 0.2];
simulationEye = 'right eye';
simulationLengthSeconds = 600/1000;
% Select stimulus spatial frequency
stimFrequencyCPD = 10;
visualizeMosaic = true;
conditionExamined = 'out... |
github | isetbio/isetbio-master | testMRGCmosaic.m | .m | isetbio-master/isettools/ganglioncells/demos/testMRGCmosaic.m | 12,275 | utf_8 | 98a8904f6948d1aa6bc5e426ac28c321 | function testMRGCmosaic
% RGC mosaic ecc and size
mosaicEccDegs = [1 0]; mosaicSizeDegs = 0.5*[1 1]; whichEye = 'right';
% Chromatic direction examined
chromaDir = [0.8 0.8 0.8]';
% Simulate no Poisson noise in the cone mosaic
coneNoise = 'none';
% Simulate Gaussian n... |
github | isetbio/isetbio-master | testNewMRGCmosaic.m | .m | isetbio-master/isettools/ganglioncells/demos/testNewMRGCmosaic.m | 4,035 | utf_8 | 552b97500027e03d1f95cff30396e469 | function testNewMRGCmosaic()
% Eccentricity
eccDegs = [12.5 -3.4]; % near the optic disk
sizeDegs = 2*[1 1];
% Default creation
m = mRGCMosaic('eccentricityDegs', eccDegs, 'sizeDegs', sizeDegs);
m.whichEye
computeStats(m);
visualizeMosaicAndItsInput(1,m);
% Create given an input ... |
github | isetbio/isetbio-master | testEccVaryingOpticsAndConeMosaic.m | .m | isetbio-master/isettools/ganglioncells/demos/testEccVaryingOpticsAndConeMosaic.m | 2,477 | utf_8 | 482043b1fee9d5f6d45033c2b9c2d80a | function testEccVaryingOpticsAndConeMosaic
eccDegs = [30 0];
subjectID = 10;
pupilDiamMM = 3.0;
whichEye = 'right eye';
[theConeMosaic, thePSF, wavelengthSupport, spatialSupport] = eccVaryingOpticsAndConeMosaic(eccDegs, whichEye, subjectID, pupilDiamMM);
% Visualize PSF and cone mosaic... |
github | isetbio/isetbio-master | retrieveMultifocalRTVFOpticsParams.m | .m | isetbio-master/isettools/ganglioncells/@mRGCMosaic/retrieveMultifocalRTVFOpticsParams.m | 4,023 | utf_8 | 566b40972d96e97dc97d9b3c08d49bb8 | function retrieveMultifocalRTVFOpticsParams(obj, sourceMidgetRGCMosaic)
% The number of center cones in the multifocal RTVF object
centerConesNumExamined = sort(unique(sourceMidgetRGCMosaic.theConesNumPooledByTheRFcenterGrid), 'ascend');
% The multifocalRTVFstruct
obj.multifocalRTVFgrids = struct(..... |
github | isetbio/isetbio-master | visualizeRFs.m | .m | isetbio-master/isettools/ganglioncells/@mRGCMosaic/visualizeRFs.m | 9,831 | utf_8 | 33e28b9902706de36206a0c47347c12b | function visualizeRFs(obj, rgcIndices, varargin)
% Parse optional input
p = inputParser;
p.addParameter('figureHandle', [], @(x)(isempty(x)||isa(x, 'handle')));
p.addParameter('axesHandles', [], @(x)(isempty(x)||(iscell(x)&&(numel(x)==6))));
p.parse(varargin{:});
hFig = p.Results.figureHandle;
... |
github | isetbio/isetbio-master | generateByCroppingTheSourceMosaic.m | .m | isetbio-master/isettools/ganglioncells/@mRGCMosaic/generateByCroppingTheSourceMosaic.m | 4,583 | utf_8 | 31ac4820b15ae38ffeb3e3a2d3e67df8 | % Method to generate the mRGCMosaic by cropping the sourceMidgetRGCMosaic
function generateByCroppingTheSourceMosaic(obj, sourceMidgetRGCMosaic, visualizeSpatialRelationshipToSourceMosaic)
if ((isempty(obj.eccentricityDegs))&&(isempty(obj.sizeDegs))) || ...
((all(obj.eccentricityDegs==sourceMidgetRGCMosaic... |
github | isetbio/isetbio-master | compute.m | .m | isetbio-master/isettools/ganglioncells/@mRGCMosaic/compute.m | 7,285 | utf_8 | 96416957ab330c0ac8168334087a1915 | % Method to compute the spatiotemporal response of the mRGCMosaic given the response of its input cone
% mosaic
function [theMRGCresponses, theMRGCresponseTemporalSupportSeconds] = compute(obj, ...
theConeMosaicResponse, theConeMosaicResponseTemporalSupportSeconds, varargin)
p = inputParser;
p.addP... |
github | isetbio/isetbio-master | visualize.m | .m | isetbio-master/isettools/ganglioncells/@mRGCMosaic/visualize.m | 21,288 | utf_8 | 3110c06b6e02e960d348deaa3c19fe73 | function visualize(obj, varargin)
% Parse optional input
p = inputParser;
p.addParameter('figureHandle', [], @(x)(isempty(x)||isa(x, 'handle')));
p.addParameter('axesHandle', [], @(x)(isempty(x)||isa(x, 'handle')));
p.addParameter('component', 'RF centers', @(x)ismember(x, {'RF centers'}));
... |
github | isetbio/isetbio-master | transferSourceRFsToZeroInputDestinationRFs.m | .m | isetbio-master/isettools/ganglioncells/@MosaicConnector/transferSourceRFsToZeroInputDestinationRFs.m | 6,709 | utf_8 | ef65141b9d51df14f6d0f433145238c9 | function transferSourceRFsToZeroInputDestinationRFs(obj, varargin)
% Parse input
p = inputParser;
p.addParameter('generateProgressVideo', false, @islogical);
p.parse(varargin{:});
generateProgressVideo = p.Results.generateProgressVideo;
% Compute the # of cone inputs for all destinationRFs
... |
github | isetbio/isetbio-master | visualizeDestinationLatticePooling.m | .m | isetbio-master/isettools/ganglioncells/@MosaicConnector/visualizeDestinationLatticePooling.m | 8,050 | utf_8 | 9dc33b80c5b0b551eda4147a4927f8fa | function visualizeDestinationLatticePooling(obj, varargin)
p = inputParser;
p.addParameter('figureHandle', [], @(x)(isempty(x)||isa(x, 'handle')));
p.addParameter('axesHandle', [], @(x)(isempty(x)||isa(x, 'handle')));
p.addParameter('titleString', '', @(x)(isempty(x) || (ischar(x))));
p.addPara... |
github | isetbio/isetbio-master | connectSourceRFsToDestinationRFsBasedOnLocalDensities.m | .m | isetbio-master/isettools/ganglioncells/@MosaicConnector/connectSourceRFsToDestinationRFsBasedOnLocalDensities.m | 3,737 | utf_8 | d4fd52df202d26b7696aa0e4a981e543 | function connectSourceRFsToDestinationRFsBasedOnLocalDensities(obj)
% For each destination RF try to connect to N source RFs that are not further than 1
% destination RF separation away and that are not already connected to
% another destination RF. N is the sourceToDestinationDensityRatio
% The obj.connectivityMatrix ... |
github | isetbio/isetbio-master | optimizeSwappingOfInputRFs.m | .m | isetbio-master/isettools/ganglioncells/@MosaicConnector/optimizeSwappingOfInputRFs.m | 11,555 | utf_8 | d458b70876f9a608c8ac602b8328ce06 | function beneficialSwapWasFound = optimizeSwappingOfInputRFs(obj,...
theDestinationRFindex, theDestinationRFinputIndices, theDestinationRFinputWeights, ...
allNearbyDestinationRFindices, allNearbyDestinationRFinputIndices, allNearbyDestinationRFinputWeights)
% Compute cost for the destinationRF to ... |
github | isetbio/isetbio-master | divergeSourceRFsToNearbyDestinationRFs.m | .m | isetbio-master/isettools/ganglioncells/@MosaicConnector/divergeSourceRFsToNearbyDestinationRFs.m | 10,992 | utf_8 | bcfd9e583ca00b4df219c5e35405bdfd | function divergeSourceRFsToNearbyDestinationRFs(obj, varargin)
% Parse input
p = inputParser;
p.addParameter('destinationRFoverlapRatio', [], @(x)((isempty(x))||(isscalar(x)&&(x>=0)&&(x<1))));
p.parse(varargin{:});
if (obj.connectivityMatrixIsNonExclusiveAnyMore)
fprintf(2, 'The connectivi... |
github | isetbio/isetbio-master | optimizeTransferOfInputRFs.m | .m | isetbio-master/isettools/ganglioncells/@MosaicConnector/optimizeTransferOfInputRFs.m | 4,520 | utf_8 | 1f8bc6e419698b85895de7d5aae051d2 | % Optimize how many and which of theDestinationRFinputIndices will
% be transfered to one of the allNearbyDestinationRFindices
function optimizeTransferOfInputRFs(obj, ...
theDestinationRFindex, theDestinationRFinputIndices, theDestinationRFinputWeights, ...
allNearbyDestinationRFindices, allNearbyDesti... |
github | isetbio/isetbio-master | generateStimulusFramesOnPresentationDisplay.m | .m | isetbio-master/isettools/ganglioncells/+rfMappingStimulusGenerator/generateStimulusFramesOnPresentationDisplay.m | 8,766 | utf_8 | 511299b354214d2c5d2c381c69c35f38 | function [theScenes, theNullStimulusScene, spatialSupportDegs] = ...
generateStimulusFramesOnPresentationDisplay(...
presentationDisplay, stimParams, ...
spatialModulationPatterns, varargin)
p = inputParser;
p.addParameter('validateScenes', false, @islogical);
p.pars... |
github | isetbio/isetbio-master | examineConeRFspacingVsPSFsize.m | .m | isetbio-master/isettools/ganglioncells/tests/examineConeRFspacingVsPSFsize.m | 10,854 | utf_8 | 0becd5cb7fc563c6424eddd8780ddf22 | function examineConeRFspacingVsPSFsize()
retinaQuadrant = 'nasal meridian';
if (strcmp(retinaQuadrant, 'nasal meridian'))
radialEccExamined = [0 1 2 3 4 6 8 12 19 24 30];
else
radialEccExamined = [0 1 2 3 4 6 8 12 16 20 24 30];
end
% Optics subject
opticsDataBase = 'Artal2012';... |
github | isetbio/isetbio-master | test_RetinaRFestimationFromTargetVisualRF.m | .m | isetbio-master/isettools/ganglioncells/tests/test_RetinaRFestimationFromTargetVisualRF.m | 19,961 | utf_8 | abd228403772e824a1927ec23da7dfcf | function test_RetinaRFestimationFromTargetVisualRF
% Optics params
ZernikeDataBase = 'Artal2012';
pupilDiameterMM = 3.0;
% Retinallocation and eye
analyzedRetinaMeridian = 'temporal meridian';
% Human subject rank
% Only the first 30 subjects
examinedSubjectRankOrders = 1:38;... |
github | isetbio/isetbio-master | photonCatchComputations.m | .m | isetbio-master/isettools/ganglioncells/tests/photonCatchComputations.m | 8,973 | utf_8 | 4fa32d06fb2fd7a16d5e25ded3bedfa8 | function photonCatchComputations()
assembleISETBioData = ~true;
if (assembleISETBioData)
% You need to have ISETBio in your path to run this
assembleISETBioDataAcrossEccentricities();
end
% You need to have ISETBioData.mat in your path to run this
analyzePhotonCatchFactors();
end
... |
github | isetbio/isetbio-master | analyzeEccentricityComputations.m | .m | isetbio-master/isettools/ganglioncells/tests/analyzeEccentricityComputations.m | 29,952 | utf_8 | a8e5026e5308b4137369a97063b59ab0 | function analyzeEccentricityComputations()
mosaicEccDegs = [...
0 0; ...
-1 0; ...
-2 0; ...
-4 0; ...
-6 0; ...
-8 0];
mosaicEccDegs = [...
-3 0];
inspectTheSpatialRFs = true;
inspectTheSTFs = ~true;
contrastModelToCronerAndKaplan = true;
... |
github | isetbio/isetbio-master | dryRunRFgeneration.m | .m | isetbio-master/isettools/ganglioncells/tests/dryRunRFgeneration.m | 11,626 | utf_8 | 307a962b21494948af3435e2acd0110e | function dryRunRFgeneration()
% Optics params
ZernikeDataBase = 'Artal2012';
examinedSubjectRankOrder = 1;
pupilDiameterMM = 3.0;
% Retinal location and eye
analyzedRetinaMeridian = 'nasal meridian';
% Number of cones in RF center
conesNumPooledByTheRFcenter = 3;
analyzedEye ... |
github | isetbio/isetbio-master | test_ConeToMRGCMosaicConnector.m | .m | isetbio-master/isettools/ganglioncells/tests/test_ConeToMRGCMosaicConnector.m | 6,025 | utf_8 | 85ecc84a213c7ff42f2f156097663788 | function test_ConeToMRGCMosaicConnector()
sourceLatticeSizeDegs = 60;
customDegsToMMsConversionFunction = @(x)RGCmodels.Watson.convert.rhoDegsToMMs(x);
customMMsToDegsConversionFunction = @(x)RGCmodels.Watson.convert.rhoMMsToDegs(x);
% Generate the input cone mosaic (the source)
eccDegs = [-4 0]; ... |
github | isetbio/isetbio-master | test_VisualProjectionOfConeApertureUsingEccVaryingOptics.m | .m | isetbio-master/isettools/ganglioncells/tests/test_VisualProjectionOfConeApertureUsingEccVaryingOptics.m | 8,729 | utf_8 | 6d9d775ba451ba65bac0bd4028a42587 | function test_VisualProjectionOfConeApertureUsingEccVaryingOptics()
% Intantiate RetinaToVisualFieldTrasformer with the Artal database
xFormer = RetinaToVisualFieldTransformer('ZernikeDataBase', 'Artal2012');
% Analyze along the temporal meridian
analyzedRetinaMeridian = 'temporal meridian';
subje... |
github | isetbio/isetbio-master | testRetinaToVisualFieldTransformer.m | .m | isetbio-master/isettools/ganglioncells/tests/testRetinaToVisualFieldTransformer.m | 10,462 | utf_8 | cc0fcb0c9e14641a546710c26e823fe3 | function testRetinaToVisualFieldTransformer(reComputeData)
% Subjects to use in this batch job
examinedSubjectRankOrders = 1:41;
% Remove some subjects which increase the variance a lot
examinedSubjectRankOrders = setdiff(examinedSubjectRankOrders, [5 16 20 23 31 34 36 37]);
examinedSubjectRankOrd... |
github | isetbio/isetbio-master | analyzePhotonCatchFactors.m | .m | isetbio-master/isettools/ganglioncells/tests/analyzePhotonCatchFactors.m | 9,123 | utf_8 | 7ed1006f53069ad207f2095ac92e2590 | function hFigs = analyzePhotonCatchFactors()
% Load ISETBio data across eccentricities
load('ISETBioData.mat', 'dataDict', 'eccDegsGrid');
% Retrieve the metadata
dMetaDataStruct = dataDict('metaData');
% Retrieve the foveal data
dataLabel = sprintf('eccXY = %2.2f,%2.2f', 0, 0);
dStruct = ... |
github | isetbio/isetbio-master | JohannesEccentricityAnalyses.m | .m | isetbio-master/isettools/ganglioncells/tests/JohannesEccentricityAnalyses.m | 35,971 | utf_8 | a67ca0c6c173337f18f327af1f42e68c | function JohannesEccentricityAnalyses2
% Get dropboxDir & intermediate data files location
computerInfo = GetComputerInfo();
switch (computerInfo.localHostName)
case 'Ithaka'
dropboxDir = '/Volumes/SSDdisk/Aguirre-Brainard Lab Dropbox/Nicolas Cottaris/midgetRGCMosaics';
mapp... |
github | isetbio/isetbio-master | generateProductionMidgetRGCMosaic.m | .m | isetbio-master/isettools/ganglioncells/tests/generateProductionMidgetRGCMosaic.m | 36,854 | utf_8 | 8357ab2b276fd793db3b5773afcb9dc4 | function generateProductionMidgetRGCMosaic()
mosaicCenterParams = struct(...
'positionDegs',[0 0], ...
'sizeDegs', [3 3], ...
'whichEye', 'right eye');
H1cellIndex = 1;
% Generate mosaic filename and directory
[mosaicFileName, mosaicDirectory] = generateMosaicFileName... |
github | isetbio/isetbio-master | testMidgetRGCmosaic.m | .m | isetbio-master/isettools/ganglioncells/tests/testMidgetRGCmosaic.m | 14,035 | utf_8 | 4c5d40d1e9f2df60dac4ef24c5175358 | function testMidgetRGCmosaic
regenerateMidgetRGCMosaic = ~true;
analyzeRetinalRFoverlap = true;
recomputeRetinalRFoverlap = true;
reMapRFs = ~true;
% Examined overlap ratio
overlapValuesExamined = [0.2 0.35 0.5 0.65];
horizontalEccsExamined = -[0 1 2 4 6 8 12 16 20 24 30];
for iOverla... |
github | isetbio/isetbio-master | examineMidgetRFcenterSizeVsPSFsize.m | .m | isetbio-master/isettools/ganglioncells/tests/examineMidgetRFcenterSizeVsPSFsize.m | 47,206 | utf_8 | 3bb22efe47ddd49cd242d5c0c3aa023f | function examineMidgetRFcenterSizeVsPSFsize()
% Choose retinal quadrant
retinaQuadrant = 'temporal meridian';
if (strcmp(retinaQuadrant, 'nasal meridian'))
radialEccExamined = [0 1 2 3 4 6 8 12 19 24 30];
else
radialEccExamined = [0 1 2 3 4 6 8 12 16 20 24 30];
end
% Optics su... |
github | isetbio/isetbio-master | performEccentricityComputations.m | .m | isetbio-master/isettools/ganglioncells/tests/performEccentricityComputations.m | 34,786 | utf_8 | 2fb6de3ff0da6d458eb641235c6d7f61 | function performEccentricityComputations()
mosaicEccDegs = [ ...
-12 0; ...
-10 0; ...
-8 0; ...
-6 0; ...
-5 0; ...
-4 0; ...
-2 0; ...
-1 0; ...
-0.5 0; ...
0.0 0; ...
0.5 0; ...
1 0; ...
... |
github | isetbio/isetbio-master | fitScatterGaussianEllipsoid.m | .m | isetbio-master/isettools/ganglioncells/Deprecated/@RetinaToVisualFieldTransformer_beforeRTVF/fitScatterGaussianEllipsoid.m | 7,428 | utf_8 | 4a652113d81004cb4eddc2eba0c6f2a8 | % Method to fit a 2D Gaussian ellipsoid to a RF defined by a scatter of
% inputs with a spatial position and a weight
function theFittedGaussian = fitScatterGaussianEllipsoid(supportX, supportY, theRF, inputWeights, inputPositions, varargin)
p = inputParser;
p.addParameter('flatTopGaussian', false, @islogical)... |
github | isetbio/isetbio-master | performCronerKaplanSimulation.m | .m | isetbio-master/isettools/ganglioncells/Deprecated/@RetinaToVisualFieldTransformer_beforeRTVF/performCronerKaplanSimulation.m | 9,168 | utf_8 | e23bc84b65e9682bf0992130904d5c47 |
function [theRMSEvector, theRotatedRF, theRFprofile, ...
theVisualSTF, theSpatialFrequencySupport, ...
theFittedSTFsurroundToCenterRcRatio, ...
theFittedSTFsurroundToCenterIntegratedSensitivityRatio, ...
ratioWeights] = performCronerKaplanSimulation(...
theVisualRF, ... |
github | isetbio/isetbio-master | circularlySymmetricPSF.m | .m | isetbio-master/isettools/ganglioncells/Deprecated/@RetinaToVisualFieldTransformer_beforeRTVF/circularlySymmetricPSF.m | 2,546 | utf_8 | 836495602c81866863cd0769464aa756 | function theCircularPSF = circularlySymmetricPSF(thePSF, mode)
switch (mode)
case RetinaToVisualFieldTransformer.psfCircularSymmetryModeNone
theCircularPSF = thePSF;
case RetinaToVisualFieldTransformer.psfCircularSymmetryModeAverage
theCircularPSF = circular... |
github | isetbio/isetbio-master | spectrallyWeightedPSFs.m | .m | isetbio-master/isettools/ganglioncells/Deprecated/@RetinaToVisualFieldTransformer_beforeRTVF/spectrallyWeightedPSFs.m | 7,769 | utf_8 | fd5ff17146c2e1ac27ff5b721591abee | function spectrallyWeightedPSFs(obj)
[obj.theSpectrallyWeightedPSFData, ...
obj.testSubjectID, ...
obj.subtractCentralRefraction, ...
obj.opticsParams] = computeWeightedPSFs(...
obj.opticsParams, ...
obj.theConeMosaic, ...
obj.psfWavelengthSupport);
end
function... |
github | isetbio/isetbio-master | fitGaussianEllipsoid.m | .m | isetbio-master/isettools/ganglioncells/Deprecated/@RetinaToVisualFieldTransformer_beforeRTVF/fitGaussianEllipsoid.m | 7,075 | utf_8 | b7550408bdf8f535f65212fc943ff89b | % Method to fit a 2D Gaussian ellipsoid to a continous RF
function theFittedGaussian = fitGaussianEllipsoid(supportX, supportY, theRF, varargin)
p = inputParser;
p.addParameter('flatTopGaussian', false, @islogical);
p.addParameter('forcedOrientationDegs', [], @(x)(isempty(x) || isscalar(x)));
p.addPara... |
github | isetbio/isetbio-master | retinalRFparamsForTargetVisualRF.m | .m | isetbio-master/isettools/ganglioncells/Deprecated/@RetinaToVisualFieldTransformer_beforeRTVF/retinalRFparamsForTargetVisualRF.m | 36,902 | utf_8 | 28a19411f2d666236240eaaf9d5aa76b | function theRFcomputeStruct = retinalRFparamsForTargetVisualRF(obj, indicesOfConesPooledByTheRFcenter, ...
weightsOfConesPooledByTheRFcenter, targetVisualRFDoGparams, ...
centerConeType, initialRetinalConePoolingParamsStruct)
switch (centerConeType)
case cMosaic.LCONE_ID
theRFCenterCone... |
github | isetbio/isetbio-master | analyzeRFcenter.m | .m | isetbio-master/isettools/ganglioncells/Deprecated/@RetinaToVisualFieldTransformer_beforeRTVF/analyzeRFcenter.m | 8,817 | utf_8 | e335b91fb1f27c1dcd277065f7c7a7a6 | % Method to compute the cone map for the RF center and its corresponding Gaussian characteristic radius
function [visualRFcenterCharacteristicRadiusDegs, visualRFcenterConeMap, ...
visualRFcenterCharacteristicRadiiDegs, visualRFcenterFlatTopExponents, ...
visualRFcenterXYpos, visualRFcenterOrientationDegs, ...
... |
github | isetbio/isetbio-master | visualizeFittedLocationsCombo.m | .m | isetbio-master/isettools/ganglioncells/@RTVFmultifocal/visualizeFittedLocationsCombo.m | 27,246 | utf_8 | cf7f8cf2987b0f7d1bb50e7e8514eee8 | function visualizeFittedLocationsCombo(mosaicDirectory, figNo, theMidgetRGCmosaic, ...
theRTFVTobjList, theOpticsPositionGrid, theConesNumPooledByTheRFcenterGrid, ...
varargin)
validComponents = {...
'retinal quantal efficiencies', ...
'PSFs', ...
'retinal L-center RF subregions', .... |
github | isetbio/isetbio-master | peekIntoSingleRTVFobj.m | .m | isetbio-master/isettools/ganglioncells/@RTVFmultifocal/peekIntoSingleRTVFobj.m | 6,076 | utf_8 | 56c65f196c3558793126e8afafe6a170 | function peekIntoSingleRTVFobj(theRTVFTobj, iRTVobjIndex, ...
theOpticsPositionGrid, theConesNumPooledByTheRFcenterGrid, figNo)
iRTVobjIndexDoesNotCorrespondToFullList = false;
if (iRTVobjIndex < 0)
iRTVobjIndex = -iRTVobjIndex;
iRTVobjIndexDoesNotCorrespondToFullList = true;
end
... |
github | isetbio/isetbio-master | compute.m | .m | isetbio-master/isettools/ganglioncells/@RTVFmultifocal/compute.m | 10,791 | utf_8 | 4fff94dbc32234674bb572ac9f851bca | function compute(obj, ...
initialGridRetinalConePoolingParamsStruct, ...
multifocalRTVFindicesToBeComputed, ...
computeLconeCenterComputeStruct, ...
computeMconeCenterComputeStruct, ...
exportsDirectory)
% Allocate memory
multifocalRTVFobjectsNum = numel(obj.conesNumPooledByTheRFcenterGrid... |
github | isetbio/isetbio-master | computeSpectrallyWeightedPSFs.m | .m | isetbio-master/isettools/ganglioncells/@RTVF/computeSpectrallyWeightedPSFs.m | 7,874 | utf_8 | 44255158f77eb9521f16ae67f3060cf1 | function computeSpectrallyWeightedPSFs(obj, visualize, varargin)
% Compute spectrally weighted (L-cone, M-cone and L+M-cone weighted) PSFs
%
% Syntax:
% spectrallyWeightedPSFs(obj, visualize, varargin)
%
% Description:
% Computes spectrally weighted (L-cone, M-cone and L+M-cone weighted)
% PSFs, where the L- an... |
github | isetbio/isetbio-master | saveComputedObject.m | .m | isetbio-master/isettools/ganglioncells/@RTVF/saveComputedObject.m | 3,891 | utf_8 | b4d3916cedc892f157c195c2418d3f7e | function RTVFfileWasUpdated = saveComputedObject(obj, computeLconeCenterComputeStruct, computeMconeCenterComputeStruct)
RTVFfileWasUpdated = false;
if (writeTheFile(obj, computeLconeCenterComputeStruct, computeMconeCenterComputeStruct))
fprintf('Saving computed object to %s\n', obj.computedObjDataFileN... |
github | isetbio/isetbio-master | fitGaussianEllipsoid.m | .m | isetbio-master/isettools/ganglioncells/@RTVF/fitGaussianEllipsoid.m | 7,048 | utf_8 | 4d2f1ddfdb0523ba5ee718224b4a2005 | % Method to fit a 2D Gaussian ellipsoid to a RF cone map
function theFittedGaussian = fitGaussianEllipsoid(supportX, supportY, theRF, varargin)
p = inputParser;
p.addParameter('flatTopGaussian', false, @islogical);
p.addParameter('forcedOrientationDegs', [], @(x)(isempty(x) || isscalar(x)));
p.addParam... |
github | isetbio/isetbio-master | computeConeApertureBlurKernel.m | .m | isetbio-master/isettools/ganglioncells/@RTVF/computeConeApertureBlurKernel.m | 1,459 | utf_8 | 9827ab357a653b86a7070aa0c2c7c959 | function computeConeApertureBlurKernel(obj)
theConeIndices = obj.targetVisualRFDoGparams.indicesOfConesPooledByTheRFcenter;
% Find the blurZone in which theConeIndices belong to
targetZoneIndex = coneApertureBlurZone(obj.coneMosaic, theConeIndices);
% Retrieve the blurApertureDiameter for the target ... |
github | isetbio/isetbio-master | displayFittingProgress.m | .m | isetbio-master/isettools/ganglioncells/@RTVF/displayFittingProgress.m | 5,424 | utf_8 | 34ac2b05f32330ef2fc9991a6fd28da7 | function rmseSequence = displayFittingProgress(hFigProgress, videoOBJ, rmseSequence, ...
RsRcRatioResidual, SCintSensRatioResidual, theCurrentRMSE, ...
retinalConePoolingParams, currentRetinalPoolingParamValues, ...
theCurrentSTFdata, ...
spatialSupportDeg... |
github | isetbio/isetbio-master | figure1.m | .m | isetbio-master/isettools/ganglioncells/+RGCmodels/+Watson/+plot/figure1.m | 1,749 | utf_8 | d8beae8bd962e9172390475c2420c2ea | % Generate Figure 1 of the Watson (2014) paper, which plots the variation
% in cone density with eccentricity along the 4 principal meridians.
function figure1()
% Define ecc range in degrees
eccDegs = logspace(log10(0.01), log10(90), 50);
% Retrieve all meridians
examinedMeridians = RGCmodels.Wats... |
github | isetbio/isetbio-master | figure14.m | .m | isetbio-master/isettools/ganglioncells/+RGCmodels/+Watson/+plot/figure14.m | 1,876 | utf_8 | 453d3f8bb68eae63fcaaab9cda94726f | % Generate Figure 14 of the Watson (2014) paper, which plots the ratio of
% midget RGCs: cones as a function of eccentricity along the 4 principal meridians.
function figure14()
% Define ecc range in degrees
eccDegs = logspace(log10(0.01), log10(80), 50);
% Retrieve all meridians
examinedMeridians ... |
github | isetbio/isetbio-master | figure9.m | .m | isetbio-master/isettools/ganglioncells/+RGCmodels/+Watson/+plot/figure9.m | 1,777 | utf_8 | 3fada9f3584e128aa79bfa6f6660038f | % Generate Figure 9 of the Watson (2014) paper, which plots the variation
% in midget RGC RF with eccentricity along the 4 principal meridians.
function figure9()
% Define ecc range in degrees
eccDegs = logspace(log10(0.01), log10(90), 50);
% Retrieve all meridians
examinedMeridians = RGCmodels.Wat... |
github | isetbio/isetbio-master | rfDensity2DMaps.m | .m | isetbio-master/isettools/ganglioncells/+RGCmodels/+Watson/+plot/rfDensity2DMaps.m | 4,966 | utf_8 | 28c21c18abd0a66774e4857697b5b433 | function rfDensity2DMaps(figNo, neuronType, varargin)
validDensityUnits = {'deg^2', 'mm^2'};
validSpatialSupportUnits = {'degs', 'mm', 'microns'};
% Configure inputs parser
p = inputParser;
p.addRequired('figNo', @isnumeric);
p.addRequired('neuronType', @ischar);
p.addParameter('spatia... |
github | isetbio/isetbio-master | figure5.m | .m | isetbio-master/isettools/ganglioncells/+RGCmodels/+Watson/+plot/figure5.m | 1,890 | utf_8 | cd6600c7b1b2889670262c13559ac99a | % Generate Figure 5 of the Watson (2014) paper, which plots the variation
% in total RGC RF with eccentricity along the 4 principal meridians.
function figure5()
% Define ecc range in degrees
eccDegs = logspace(log10(0.01), log10(90), 50);
% Retrieve all meridians
examinedMeridians = RGCmodels.Wats... |
github | isetbio/isetbio-master | visualizeCostComponentStatistics.m | .m | isetbio-master/isettools/ganglioncells/@coneToMidgetRGCConnector/visualizeCostComponentStatistics.m | 4,336 | utf_8 | 883c5300421fb99633ebd07ff7bf27fe | function visualizeCostComponentStatistics(obj, axSpatial, axChromatic, theCostComponentsMatrix)
totalCosts = theCostComponentsMatrix(:,1);
spatialVarianceCosts = theCostComponentsMatrix(:,2);
chromaticVarianceCosts = theCostComponentsMatrix(:,3);
plotSpatialVarianceCostStatistics(axSpatial, spatialVar... |
github | isetbio/isetbio-master | sceneSet.m | .m | isetbio-master/isettools/scene/sceneSet.m | 14,928 | utf_8 | 20eef56251eaf7c3336094e0a9f91601 |
function scene = sceneSet(scene, parm, val, varargin)
% Set ISET scene parameter values
%
% Syntax:
% scene = sceneSet(scene, parm, val, [varargin])
%
% Description:
% All of the parameters of a scene structure are set through the calls
% to this routine.
%
% The scene is the object; parm is the name of the... |
github | isetbio/isetbio-master | sceneCreate.m | .m | isetbio-master/isettools/scene/sceneCreate.m | 51,392 | utf_8 | 3fa82410a2c385e4297431a985896a94 | function [scene, parms] = sceneCreate(sceneName, varargin)
% Create a scene structure.
%
% Syntax:
% [scene, parms] = sceneCreate(sceneName, [varargin])
%
% Description:
% A scene describes the photons emitted from each visible point in the
% scene. Generally, we model planar objects, such as a screen display.
... |
github | isetbio/isetbio-master | sceneWindow.m | .m | isetbio-master/isettools/scene/scenegui/sceneWindow.m | 40,169 | utf_8 | b81caf306f30432ba78f545ed1022195 | function varargout = sceneWindow(varargin)
% Graphical user interface to manage the ISET SCENE properties.
%
% varargout = sceneWindow(varargin)
%
% SCENEWINDOW, by itself, creates a new SCENEWINDOW or raises the existing
% singleton.
%
% H = SCENEWINDOW returns the handle to a new SCENEWINDOW or the... |
github | isetbio/isetbio-master | sceneSetRowCol.m | .m | isetbio-master/isettools/scene/scenegui/sceneSetRowCol.m | 4,611 | utf_8 | ec9f461e802c3fbd4a01216bb351e965 | function varargout = sceneSetRowCol(varargin)
% GUI to set scene row and col (image size)
%
% varargout = sceneSetRowCol(varargin)
%
% SCENESETROWCOL, by itself, creates a new SCENESETROWCOL or raises the existing
% singleton*.
%
% H = SCENESETROWCOL returns the handle to a new SCENESETROWCOL or t... |
github | isetbio/isetbio-master | wvfComputeOptimizedConePSF.m | .m | isetbio-master/isettools/wavefront/underDevelopment_wavefront/wvfComputeOptimizedConePSF.m | 3,431 | utf_8 | b72a59846c9a9c5e27dc1608f8412e41 | function wvfOut = wvfComputeOptimizedConePSF(wvfIn)
% Optimize the PSF by the cones with sensitivities, weighting, & criterion
%
% Syntax:
% wvfParams = wvfComputeOptimizedConePSF(wvfParams)
%
% Description:
% Optimize the PSF seen by the cones, given the cone sensitivities, a
% weighting spectral power distrib... |
github | isetbio/isetbio-master | wvfPlot.m | .m | isetbio-master/isettools/wavefront/wvf/wvfPlot.m | 21,642 | utf_8 | a7a0d0211d226decf630c146e12970b3 | function [uData, pData, fNum] = wvfPlot(wvfP, pType, varargin)
% Wavefront plots
%
% Syntax:
% [userData, plotData, fNum] = wvfPlot(wvfP, [pType], [varargin]);
%
% Description:
% By default, this routine opens a new graph window (vcNewGraphWin). If
% the final varargin argument is set to 'no window', then the
%... |
github | isetbio/isetbio-master | sceneFromROI.m | .m | isetbio-master/isettools/wrappers/scene/compute/sceneFromROI.m | 1,808 | utf_8 | 540681b105ca864eac9841f1da60ba07 | % Generate scene by cropping an ROI from a source scene at a desired eccentricity
%
% Description:
% Generate a new scene by cropping an ROI from a source scene at a desired
% eccentricity. The new scene is zero centered.
%
% See Also:
% wrappers/coneMosaic/coneMosaicHexRegForDesiredEcc
% ISETBIO LiveScript... |
github | isetbio/isetbio-master | rotatedTextSceneRealizedOnDisplay.m | .m | isetbio-master/isettools/wrappers/scene/compute/rotatedTextSceneRealizedOnDisplay.m | 289,441 | utf_8 | b36062f77e97a94251b0292418ad9afd | function theScene = rotatedTextSceneRealizedOnDisplay(presentationDisplay, textSceneParams, visualize)
% Generate a text scene realized on a particular display
%
% Syntax:
% theScene = rotatedTextSceneRealizedOnDisplay(presentationDisplay, textSceneParams, visualize)
%
% Description:
% Generate a text scene using ... |
github | isetbio/isetbio-master | generateGaborScene.m | .m | isetbio-master/isettools/wrappers/scene/compute/generateGaborScene.m | 6,925 | utf_8 | 7120e88d541073cabaeb681d7ba522e1 | function scene = generateGaborScene(varargin)
% Method to generate an ISETBio scene representing a Gabor stimulus
%
% Syntax:
% scene = generateGaborScene(varargin])
%
% Description:
% This function generates an ISETBio scene of a Gabor stimulus based on
% the passes stimulus parameters. We use a built-in scen... |
github | isetbio/isetbio-master | opticsTreeShrewCreate.m | .m | isetbio-master/isettools/wrappers/treeshrew/optics/opticsTreeShrewCreate.m | 7,590 | utf_8 | 9fb0a07cf83a636ca870d1091608bb49 | function optics = opticsTreeShrewCreate(varargin)
% Create an optics structure for the TreeShrew eye
%
% Syntax:
% [optics, wvf] = opticsTreeShrew;
%
% Description:
% Set up an ISETBio tree shrew optics object (and wavefront optics
% object).
%
% Inputs:
% None.
%
% Outputs:
% optics - The optics... |
github | isetbio/isetbio-master | otfWithZeroCenteredPSF.m | .m | isetbio-master/isettools/wrappers/optics/otfWithZeroCenteredPSF.m | 2,324 | utf_8 | fa678923cb55f7ac13c970d3c3e44ea8 | function [centeredOTF, translationVector, centeredPSF, xGridMinutes,yGridMinutes] = otfWithZeroCenteredPSF(OTF, PSF, translationVector, xSfGridCyclesDegGrid, ySfGridCyclesDegGrid, showTranslation)
if (isempty(translationVector))
% Compute center of mass
centerOfMass = computeCenterOfMass(PSF, 'use... |
github | isetbio/isetbio-master | visualizePSF.m | .m | isetbio-master/isettools/wrappers/optics/visualizePSF.m | 6,040 | utf_8 | 2894c6f1390b6b807f311750f6d3dec8 | function visualizePSF(theOI, targetWavelength, psfRangeArcMin, varargin)
p = inputParser;
p.addParameter('axesHandle', [], @ishandle);
p.addParameter('withSuperimposedMosaic', [], @(x)(isa(x, 'coneMosaicHex')));
p.addParameter('figureTitle', '', @ischar);
p.addParameter('fontSize', []);
p.addParameter('contourLevels', ... |
github | isetbio/isetbio-master | opticsUpdateOTFUsingGaussianPSF.m | .m | isetbio-master/isettools/wrappers/optics/opticsUpdateOTFUsingGaussianPSF.m | 2,414 | utf_8 | c60506ef75215d3a6a392e94a36af5fa | function optics = opticsUpdateOTFUsingGaussianPSF(optics, psfSigmaMicrons, maxSF, deltaSF, wavelengthSupport)
% Update the OTF of the passed optics struct with an OTF derived from a Gaussian PSF.
%
% Syntax:
% optics = opticsWithGaussianPSF(optics, psfSigmaMicrons, maxSF, deltaSF, wavelengthSupport)
%
% Genera... |
github | isetbio/isetbio-master | coneMosaicHexRegForDesiredEcc.m | .m | isetbio-master/isettools/wrappers/coneMosaic/coneMosaicHexRegForDesiredEcc.m | 2,896 | utf_8 | 66760e21b699cf4d135fb415ebdb6dc3 | % Create a regular hex cone mosaic with params for a desired eccentricity
%
% Description:
% Create a regular hex cone mosaic with params for a desired
% eccentricity. The mosaic is actually positioned at (0,0) but its
% cones are spaced and have aperture appropriate for the desired
% eccentricity.
%
% See... |
github | isetbio/isetbio-master | visualizeConeMosaicResponses.m | .m | isetbio-master/isettools/wrappers/coneMosaic/visualizeConeMosaicResponses.m | 7,201 | utf_8 | 937f875a2218885d97e0d6ef61798f5e | function visualizeConeMosaicResponses(coneMosaic, responses, responseSignalName, varargin)
p = inputParser;
p.addParameter('customTitle', '', @ischar);
% Parse input
p.parse(varargin{:});
customTitle = p.Results.customTitle;
if (ndims(responses) == 4)
% Compute the mean differential response
meanRe... |
github | isetbio/isetbio-master | visualizeDisplayGamut.m | .m | isetbio-master/isettools/wrappers/display/visualize/visualizeDisplayGamut.m | 2,840 | utf_8 | a3c4c0ad1156dac2709a9d4b239343ee | function visualizeDisplayGamut(primariesXYZ)
% Method to visualize the display's gamut
% Extract the maximum luminance for each primary (Y tristimulus value)
maxLuminanceCdPerM2 = primariesXYZ(:,2);
% Extract the (x,y) chromaticity coordinates, e.g. x = X / (X+Y+Z)
xChroma = primariesXYZ(:,1) ./ sum(primariesXYZ,2);
yC... |
github | isetbio/isetbio-master | displayCreate.m | .m | isetbio-master/isettools/displays/displayCreate.m | 4,160 | utf_8 | 0a00a0fe6dc460ad1fa471d8033d9d2d | function d = displayCreate(displayName, varargin)
% Create a display structure
%
% Syntax:
% d = displayCreate(displayFileName, [varargin])
%
% Description:
% Display (d) calibration data are stored in a display structure.
% These are the spectral radiance distribution of its primaries and a
% gamma function... |
github | isetbio/isetbio-master | displayWindow.m | .m | isetbio-master/isettools/displays/GUI/displayWindow.m | 39,260 | utf_8 | e1c7b9febf0659e44396ffdf7026f68c | function varargout = displayWindow(varargin)
% displayWindow main window
%
% Syntax:
% [varargout] = displayWindow([varargin])
%
% Description:
% This is the main GUI window for interfacing with the Clear Type or
% Display Simulator design functions. From this window you can
% visualize the sub-pixels, load... |
github | isetbio/isetbio-master | isodd.m | .m | isetbio-master/isettools/utility/isodd.m | 2,790 | utf_8 | a472c6e325d017be1d2b31ea3db3a490 | function cal = isodd(x)
% Always nice to know if there is something odd going on ;).
%
% Syntax:
% bool = isodd(x)
%
% Description:
% A function to determine if the passed argument is an odd value
%
% Inputs:
% x - The input variable
%
% Outputs:
% cal - The calculated boolean value (true for odd, false for ... |
github | isetbio/isetbio-master | ieShape.m | .m | isetbio-master/isettools/utility/ieShape.m | 7,848 | utf_8 | 56a850a0029473debae773ec6ff52b98 | function [h, pts] = ieShape(shape, varargin)
% Draw a shape on the current window
%
% Syntax:
% [h, pts] = ieShape(type, [varargin])
%
% Description:
% This function will draw a shape on the current window.
%
% Examples in the code.
%
% Inputs:
% shape - Required input variable, with possible options of ... |
github | isetbio/isetbio-master | imageVernier.m | .m | isetbio-master/isettools/utility/image/imageVernier.m | 6,516 | utf_8 | 27c0ab3c7b2da1d282b4ae9349418f4a | function [I, params] = imageVernier(params, varargin)
% Create an RGB image of a vernier line-pair
%
% Syntax:
% [I, params] = imageVernier(params, [varargin])
%
% Description:
% The image, typically a pair of lines that are offset is created from
% the parameters. It is possible, however, to simply send in a p... |
github | isetbio/isetbio-master | computeDPrimeCritNorm.m | .m | isetbio-master/isettools/utility/psychophysics/computeDPrimeCritNorm.m | 503 | utf_8 | 535b633fea16a21dd95d805aa6cb5fca | % [dprime,critNorm] = computeDPrimeCritNorm(pHit,pFa)
%
% FindFdPrime and criterion from
% hit and fa rates.
%
% This assumes equal variance normal for the noise and
% signal response distributions.
%
% The criterion is returned in normalized units where the
% noise distribution is taken to have mean 0 and the common S... |
github | isetbio/isetbio-master | PoissonDecisionLogLikelihoood.m | .m | isetbio-master/isettools/utility/psychophysics/PoissonDecisionLogLikelihoood.m | 1,623 | utf_8 | 829e5722815a4161b6717aad87d41cdb | % Log-likelihood for Poisson response vectors
%
% Syntax:
% llDecision = PoissonDecisionLogLikelihoood(response, template)
%
% Description:
% Compute the part of the Poisson log likelihood that depends
% on the template, for use in Poisson ideal observer decisions.
%
% If we have Poisson responses (respons... |
github | isetbio/isetbio-master | SupportVectorMachineObserverNAlternativeFC.m | .m | isetbio-master/isettools/utility/psychophysics/SupportVectorMachineObserverNAlternativeFC.m | 6,234 | utf_8 | e3ef4ba09305c21552f3a834858a282c | function pCorrect = SupportVectorMachineObserverNAlternativeFC(meanResponses, nTestTrials)
% SVM-based Monte-Carlo simulation of probability correct for N-alternative forced choice
%
% Synopsis:
% probCorrect = SupportVectorMachineObserverNAlternativeFC(meanResponses,nSimulatedTrials)
%
% Description:
%
% Inputs:
% ... |
github | isetbio/isetbio-master | vcImportObject.m | .m | isetbio-master/isettools/utility/file/vcImportObject.m | 7,869 | utf_8 | 76295ce767e2d73299032d980cc4c80b | function [newVal, fullName] = vcImportObject(objType, fullName, ...
preserveDataFlag)
% Import an ISET structure from a file to the vcSESSION structure
%
% Syntax:
% [newVal, fullFileName] = vcImportObject([objType], [fullName], ...
% [preserveDataFlag])
%
% Description:
% The parameters of an ISET obj... |
github | isetbio/isetbio-master | oiPlot.m | .m | isetbio-master/isettools/utility/plots/oiPlot.m | 53,259 | utf_8 | d016a03d1e12b76de3f5b0bdd7a21e4e | function [udata, g] = oiPlot(oi, pType, roiLocs, varargin)
% Gateway routine for plotting optical image (oi) properties
%
% Syntax:
% [udata, g] = oiPlot([oi], [pType], [roiLocs], [varargin])
%
% Description:
% Gateway routine to plot the irradiance or illuminance data in the
% optical image. There are many opt... |
github | isetbio/isetbio-master | rgcLayerWindow.m | .m | isetbio-master/isettools/deprecated/rgc/util/rgcLayerWindow.m | 18,576 | utf_8 | 4b2559bcc7291ab8f55a34999f8224ba | function varargout = rgcLayerWindow(varargin)
% MATLAB code for rgcLayerWindow.fig
%
% Syntax:
% [varargout] = rgcLayerWindow([varargin])
%
% Description:
% RGCLAYERWINDOW, by itself, creates a new RGCLAYERWINDOW or raises the
% existing singleton*.
%
% H = RGCLAYERWINDOW returns the handle to a new RGCLAYER... |
github | isetbio/isetbio-master | oiForSubjectAtEccentricity.m | .m | isetbio-master/isettools/data/optics/eccentricityvarying/+ArtalOptics/oiForSubjectAtEccentricity.m | 6,194 | utf_8 | 030206c6b7f54660ed5fffbf35047cdf | function [theOI, thePSF, psfSupportMinutesX, psfSupportMinutesY, psfSupportWavelength, zCoeffs] = oiForSubjectAtEccentricity(subjectID, whichEye, ecc, ...
pupilDiamMM, wavelengthsListToCompute, micronsPerDegree, varargin)
% Parse input
p = inputParser;
p.addRequired('subjectID', @(x)(isscalar(x)&&(x>=0... |
github | isetbio/isetbio-master | oiForSubjectAtEccentricity.m | .m | isetbio-master/isettools/data/optics/eccentricityvarying/+ThibosOptics/oiForSubjectAtEccentricity.m | 4,429 | utf_8 | abf4742a6a91278a2f00aa4cee3f1d04 | function [theOI, thePSF, psfSupportMinutesX, psfSupportMinutesY, psfSupportWavelength, zCoeffs] = ...
oiForSubjectAtEccentricity(subjectID, whichEye, ...
pupilDiamMM, wavelengthsListToCompute, micronsPerDegree, varargin)
% Parse input
p = inputParser;
p.addRequired('subjectID', @(x)(isscalar(x)&&(x... |
github | isetbio/isetbio-master | oiForSubjectAtEccentricity.m | .m | isetbio-master/isettools/data/optics/eccentricityvarying/+PolansOptics/oiForSubjectAtEccentricity.m | 6,454 | utf_8 | 79d6d5ff97cae49ac2d25aa8dd289aaf | function [theOI, thePSF, psfSupportMinutesX, psfSupportMinutesY, psfSupportWavelength, zCoeffs] = oiForSubjectAtEccentricity(subjectID, whichEye, ecc, ...
pupilDiamMM, wavelengthsListToCompute, micronsPerDegree, varargin)
% Parse input
p = inputParser;
p.addRequired('subjectID', @(x)(isscalar(x)&&(x>=0... |
github | isetbio/isetbio-master | renderPSF.m | .m | isetbio-master/isettools/data/optics/eccentricityvarying/+PolansOptics/renderPSF.m | 6,110 | utf_8 | cd755dca236fd98ffa8f77467c0f7510 | function renderPSF(axesHandle, xSupport, ySupport, thePSF, xyRange, zLevels, cMap, contourLineColor, varargin)
% Parse input
p = inputParser;
p.addParameter('superimposedConeMosaic', [], @(x)(isempty(x)||isa(x, 'coneMosaicHex')));
p.addParameter('withConeData', [], @(x)(isempty(x)||isstruct(x)));
p... |
github | isetbio/isetbio-master | coneMosaicWindow.m | .m | isetbio-master/isettools/cones/coneMosaicWindow.m | 57,221 | utf_8 | 5d8feb3a7e952fc6f26c468f4f950682 | function varargout = coneMosaicWindow(varargin)
% Cone image coneMosaicWindow interface
%
% Syntax:
% varargout = coneMosaicWindow(varargin)
%
% Description:
% This is the CONEMOSAICWINDOW M-file for coneMosaicWindow.fig
%
% Graphical user interface to manage the various Image Sensor Array
% (ISA) properties.
%
... |
github | isetbio/isetbio-master | linearFilters.m | .m | isetbio-master/isettools/cones/outersegment/@osLinear/linearFilters.m | 8,957 | utf_8 | 627cade649183d09f2f7eb7abd70a8c9 | function [lmsFilters, meanCurrent] = linearFilters(os, cMosaic, varargin)
% Returns the photocurrent impulse response for a single absorption
%
% Syntax:
% [lmsFilters, meanCurrent] = linearFilters(os, cMosaic)
%
% Description:
% The LMS impulse response functions calculated here model the cone
% photocurrent res... |
github | isetbio/isetbio-master | resampleGridOLD.m | .m | isetbio-master/isettools/cones/deprecated/@coneMosaicHex/resampleGridOLD.m | 32,966 | utf_8 | 59b0e0e36e784bf38a67b65943f6b7e2 | function resampleGrid(obj, resamplingFactor)
% Sample original rectmosaic using hex grid sampled at resamplingFactor
%
% Syntax:
% resampleGrid(obj, resamplingFactor)
%
% Description:
% Sample the original rectangular mosaic using a hex grid sampled at the
% passed resamplingFactor.
%
% Inputs:
% obj ... |
github | isetbio/isetbio-master | plotHexMosaic.m | .m | isetbio-master/isettools/cones/deprecated/@coneMosaicHex/plotHexMosaic.m | 11,350 | utf_8 | 443ad681b17ae870e8cbdf530a523406 | function plotHexMosaic(obj, varargin)
% Visualize the hex grid
%
% Syntax:
% plotHexMosaic(obj, [varargin])
%
% Description:
% Using the key/value pairs you can visualize different aspects of
% the hexagonal cone mosaic.
%
% Inputs:
% obj - The cone mosaic hex object
%
% O... |
github | isetbio/isetbio-master | resampleGrid.m | .m | isetbio-master/isettools/cones/deprecated/@coneMosaicHex/resampleGrid.m | 46,438 | utf_8 | 12236a1803928d85806f86dc561741b0 | function resampleGrid(obj, resamplingFactor)
% Sample original rectmosaic using hex grid sampled at resamplingFactor
%
% Syntax:
% resampleGrid(obj, resamplingFactor)
%
% Description:
% Sample the original rectangular mosaic using a hex grid sampled at the
% passed resamplingFactor.
%
% Inputs:
% obj ... |
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