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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 | ivan-usov/FiberApp-master | HeightDistribution.m | .m | FiberApp-master/+panel/HeightDistribution.m | 8,586 | utf_8 | e2f5d8ef4305132a365842388c2abde2 | %HEIGHTDISTRIBUTION Create a height distribution panel
% Copyright (c) 2011-2014 ETH Zurich, 2015 FiberApp Contributors. All rights reserved.
% Use of this source code is governed by a BSD-style license that can be found in the LICENSE file.
function p = HeightDistribution
ph = 145; % panel height
pTitle = 'Height Di... |
github | ivan-usov/FiberApp-master | LengthDistribution.m | .m | FiberApp-master/+panel/LengthDistribution.m | 5,834 | utf_8 | f717f411281d81a797aae3d33489f44f | %LENGTHDISTRIBUTION Create a length distribution panel
% Copyright (c) 2011-2014 ETH Zurich, 2015 FiberApp Contributors. All rights reserved.
% Use of this source code is governed by a BSD-style license that can be found in the LICENSE file.
function p = LengthDistribution
ph = 122; % panel height
pTitle = 'Length Di... |
github | ivan-usov/FiberApp-master | BondCorrelationFunction.m | .m | FiberApp-master/+panel/BondCorrelationFunction.m | 7,118 | utf_8 | 7e361213841c7275f96682fa24c220d6 | %BONDCORRELATIONFUNCTION Create a bond correlation function panel
% Copyright (c) 2011-2014 ETH Zurich, 2015 FiberApp Contributors. All rights reserved.
% Use of this source code is governed by a BSD-style license that can be found in the LICENSE file.
function p = BondCorrelationFunction
ph = 122; % panel height
pTi... |
github | ivan-usov/FiberApp-master | HeightACF.m | .m | FiberApp-master/+panel/HeightACF.m | 8,345 | utf_8 | faa3360344e928097a15493599fb2b91 | %HEIGHTACF Create a height autocorrelation function panel
% Copyright (c) 2011-2014 ETH Zurich, 2015 FiberApp Contributors. All rights reserved.
% Use of this source code is governed by a BSD-style license that can be found in the LICENSE file.
function p = HeightACF
ph = 145; % panel height
pTitle = 'Height ACF';
pT... |
github | ivan-usov/FiberApp-master | ImageParameters.m | .m | FiberApp-master/+panel/ImageParameters.m | 5,587 | utf_8 | 70014dbdf131dca4d6465cc591f804e4 | %IMAGEPARAMETERS Create an image parameters panel
% Copyright (c) 2011-2014 ETH Zurich, 2015 FiberApp Contributors. All rights reserved.
% Use of this source code is governed by a BSD-style license that can be found in the LICENSE file.
function p = ImageParameters
ph = 144; % panel height
pTitle = 'Image Parameters'... |
github | ivan-usov/FiberApp-master | FiberImageGenerator.m | .m | FiberApp-master/+panel/FiberImageGenerator.m | 14,640 | utf_8 | a45b9c000e06423c2996b17194dd217b | %FIBERIMAGEGENERATOR Create a fiber image generator panel
% Copyright (c) 2011-2014 ETH Zurich, 2015 FiberApp Contributors. All rights reserved.
% Use of this source code is governed by a BSD-style license that can be found in the LICENSE file.
function p = FiberImageGenerator
ph = 333; % panel height
pTitle = 'Fiber... |
github | ivan-usov/FiberApp-master | ViewProperties.m | .m | FiberApp-master/+panel/ViewProperties.m | 6,214 | utf_8 | b0e93ecbcc3c5b839d6f24767426a8d0 | %VIEWPROPERTIES Create a view properties panel
% Copyright (c) 2011-2014 ETH Zurich, 2015 FiberApp Contributors. All rights reserved.
% Use of this source code is governed by a BSD-style license that can be found in the LICENSE file.
function p = ViewProperties
ph = 144; % panel height
pTitle = 'View Properties';
pTa... |
github | ivan-usov/FiberApp-master | MSEnd2EndDistance.m | .m | FiberApp-master/+panel/MSEnd2EndDistance.m | 8,177 | utf_8 | d6358e2bbcb8d145f596a063c5b1167d | %MSEND2ENDDISTANCE Create a mean-squared end-to-end distance panel
% Copyright (c) 2011-2014 ETH Zurich, 2015 FiberApp Contributors. All rights reserved.
% Use of this source code is governed by a BSD-style license that can be found in the LICENSE file.
function p = MSEnd2EndDistance
ph = 145; % panel height
pTitle =... |
github | ivan-usov/FiberApp-master | Colormap.m | .m | FiberApp-master/+FiberAppGUI/Colormap.m | 480 | utf_8 | 8acb440fbbf40a1cb36a17a43992d573 | %COLORMAP "Colormap" menu item callback
% Copyright (c) 2011-2014 ETH Zurich, 2015 FiberApp Contributors. All rights reserved.
% Use of this source code is governed by a BSD-style license that can be found in the LICENSE file.
function Colormap(hObject, eventdata)
FA = guidata(hObject);
FA.colorMap = utility.getColo... |
github | ivan-usov/FiberApp-master | RemoveFiber.m | .m | FiberApp-master/+FiberAppGUI/RemoveFiber.m | 813 | utf_8 | 15700f81e103a5408f69ca885f993d58 | %REMOVEFIBER "Remove Fiber" menu item callback
% Copyright (c) 2011-2014 ETH Zurich, 2015 FiberApp Contributors. All rights reserved.
% Use of this source code is governed by a BSD-style license that can be found in the LICENSE file.
function RemoveFiber(hObject, eventdata)
FA = guidata(hObject);
% Check if there is... |
github | ivan-usov/FiberApp-master | OpenImage.m | .m | FiberApp-master/+FiberAppGUI/OpenImage.m | 2,690 | utf_8 | 95caeb9d30b24cdfee4f4665564100ab | %OPENIMAGE "Open Image" menu item callback
% Copyright (c) 2011-2014 ETH Zurich, 2015 FiberApp Contributors. All rights reserved.
% Use of this source code is governed by a BSD-style license that can be found in the LICENSE file.
function OpenImage(hObject, eventdata)
FA = guidata(hObject);
% Open dialog for image se... |
github | ivan-usov/FiberApp-master | ShowHidePanel.m | .m | FiberApp-master/+FiberAppGUI/ShowHidePanel.m | 824 | utf_8 | 15b9523207312e3b51ad272fa9622875 | %SHOWHIDEPANEL A callback to show and close panels via their menu and toolbar items
% Copyright (c) 2011-2014 ETH Zurich, 2015 FiberApp Contributors. All rights reserved.
% Use of this source code is governed by a BSD-style license that can be found in the LICENSE file.
function ShowHidePanel(hObject, eventdata)
tag ... |
github | ivan-usov/FiberApp-master | Tutorial.m | .m | FiberApp-master/+FiberAppGUI/Tutorial.m | 489 | utf_8 | cad55609f5bf302cb6389bf8d61be56d | %TUTORIAL "Tutorial" menu item callback
% Copyright (c) 2011-2014 ETH Zurich, 2015 FiberApp Contributors. All rights reserved.
% Use of this source code is governed by a BSD-style license that can be found in the LICENSE file.
function Tutorial(hObject, eventdata)
FA = guidata(hObject);
if FA.isTutorial == true
... |
github | ivan-usov/FiberApp-master | FitAllFibers.m | .m | FiberApp-master/+FiberAppGUI/FitAllFibers.m | 727 | utf_8 | 7919832c52707b52409be179aab195fb | %FITALLFIBERS "Fit All Fibers" menu item callback
% Copyright (c) 2011-2014 ETH Zurich, 2015 FiberApp Contributors. All rights reserved.
% Use of this source code is governed by a BSD-style license that can be found in the LICENSE file.
function FitAllFibers(hObject, eventdata)
prev = 0;
hwb = waitbar(prev, 'Please w... |
github | ivan-usov/FiberApp-master | Zoom.m | .m | FiberApp-master/+FiberAppGUI/Zoom.m | 444 | utf_8 | e0bf6a01f2087aceabb547e9e8f41fd7 | %ZOOM Zoom-related menu items callback
% Copyright (c) 2011-2014 ETH Zurich, 2015 FiberApp Contributors. All rights reserved.
% Use of this source code is governed by a BSD-style license that can be found in the LICENSE file.
function Zoom(hObject, eventdata, dir)
FA = guidata(hObject);
switch dir
case 'in'
... |
github | ivan-usov/FiberApp-master | FitFiber.m | .m | FiberApp-master/+FiberAppGUI/FitFiber.m | 4,289 | utf_8 | 325871adb9208d66722a16baabe81942 | %FITFIBER "Fit Fiber" menu item callback
% Copyright (c) 2011-2014 ETH Zurich, 2015 FiberApp Contributors. All rights reserved.
% Use of this source code is governed by a BSD-style license that can be found in the LICENSE file.
function FitFiber(hObject, eventdata)
FA = guidata(hObject);
% Check if there is selected... |
github | ivan-usov/FiberApp-master | Exit.m | .m | FiberApp-master/+FiberAppGUI/Exit.m | 268 | utf_8 | af09a91ae924da8067769924ac92785f | %EXIT "Exit" menu item callback
% Copyright (c) 2011-2014 ETH Zurich, 2015 FiberApp Contributors. All rights reserved.
% Use of this source code is governed by a BSD-style license that can be found in the LICENSE file.
function Exit(hObject, eventdata)
close(gcf);
|
github | ivan-usov/FiberApp-master | SaveData.m | .m | FiberApp-master/+FiberAppGUI/SaveData.m | 649 | utf_8 | 53ea603b958967b0bb786da5564acab2 | %SAVEDATA "Save Data" menu item callback
% Copyright (c) 2011-2014 ETH Zurich, 2015 FiberApp Contributors. All rights reserved.
% Use of this source code is governed by a BSD-style license that can be found in the LICENSE file.
function isSaved = SaveData(hObject, eventdata)
FA = guidata(hObject);
if isempty(FA.data... |
github | ivan-usov/FiberApp-master | ZInterpolation.m | .m | FiberApp-master/+FiberAppGUI/ZInterpolation.m | 448 | utf_8 | db2bfa1826bd301e376fe2ace884a93d | %ZINTERPOLATION "Z Interpolation" menu item callback
% Copyright (c) 2011-2014 ETH Zurich, 2015 FiberApp Contributors. All rights reserved.
% Use of this source code is governed by a BSD-style license that can be found in the LICENSE file.
function ZInterpolation(hObject, eventdata)
FA = guidata(hObject);
FA.zInterp... |
github | ivan-usov/FiberApp-master | MergeData.m | .m | FiberApp-master/+FiberAppGUI/MergeData.m | 2,192 | utf_8 | 661a75ac5235d1b2829c765b145f897e | %MERGEDATA "Merge Data" menu item callback
% Copyright (c) 2011-2014 ETH Zurich, 2015 FiberApp Contributors. All rights reserved.
% Use of this source code is governed by a BSD-style license that can be found in the LICENSE file.
function MergeData(hObject, eventdata)
% Get addresses of the files to merge
[fileName, ... |
github | ivan-usov/FiberApp-master | SetZeroLevelImage.m | .m | FiberApp-master/+FiberAppGUI/SetZeroLevelImage.m | 772 | utf_8 | 39cf3856bbc4da801a08e57ef0750bb3 | %SETZEROLEVELIMAGE "Set Zero Level" menu item callback
% Copyright (c) 2011-2014 ETH Zurich, 2015 FiberApp Contributors. All rights reserved.
% Use of this source code is governed by a BSD-style license that can be found in the LICENSE file.
function SetZeroLevelImage(hObject, eventdata)
FA = guidata(hObject);
rect... |
github | ivan-usov/FiberApp-master | RemoveSurfaceImage.m | .m | FiberApp-master/+FiberAppGUI/RemoveSurfaceImage.m | 540 | utf_8 | c43cff18f91d9de7921ac7a236340eff | %REMOVESURFACEIMAGE "Remove Surface" menu item callback
% Copyright (c) 2011-2014 ETH Zurich, 2015 FiberApp Contributors. All rights reserved.
% Use of this source code is governed by a BSD-style license that can be found in the LICENSE file.
function RemoveSurfaceImage(hObject, eventdata)
FA = guidata(hObject);
hwb... |
github | ivan-usov/FiberApp-master | NewData.m | .m | FiberApp-master/+FiberAppGUI/NewData.m | 731 | utf_8 | 1ba060aca14eb2050e217844ef2efb07 | %NEWDATA "New Data" menu item callback
% Copyright (c) 2011-2014 ETH Zurich, 2015 FiberApp Contributors. All rights reserved.
% Use of this source code is governed by a BSD-style license that can be found in the LICENSE file.
function NewData(hObject, eventdata)
FA = guidata(hObject);
% Check for modifications
if FA... |
github | ivan-usov/FiberApp-master | SaveDataAs.m | .m | FiberApp-master/+FiberAppGUI/SaveDataAs.m | 1,048 | utf_8 | b88b6563743d0b474e1f5cad132ad27c | %SAVEDATAAS "Save Data As" menu item callback
% Copyright (c) 2011-2014 ETH Zurich, 2015 FiberApp Contributors. All rights reserved.
% Use of this source code is governed by a BSD-style license that can be found in the LICENSE file.
function isSaved = SaveDataAs(hObject, eventdata)
FA = guidata(hObject);
% Get fileN... |
github | ivan-usov/FiberApp-master | ViewHelp.m | .m | FiberApp-master/+FiberAppGUI/ViewHelp.m | 291 | utf_8 | 1d89eb1559fd9e0c54d90f6d824bbc98 | %VIEWHELP "View Help" menu item callback
% Copyright (c) 2011-2014 ETH Zurich, 2015 FiberApp Contributors. All rights reserved.
% Use of this source code is governed by a BSD-style license that can be found in the LICENSE file.
function ViewHelp(hObject, eventdata)
% TODO: open help file
|
github | ivan-usov/FiberApp-master | AddFiber.m | .m | FiberApp-master/+FiberAppGUI/AddFiber.m | 1,507 | utf_8 | bc469682023ad62ad400c87ceccdee1f | %ADDFIBER "Add Fiber" menu item callback
% Copyright (c) 2011-2014 ETH Zurich, 2015 FiberApp Contributors. All rights reserved.
% Use of this source code is governed by a BSD-style license that can be found in the LICENSE file.
function AddFiber(hObject, eventdata)
FA = guidata(hObject);
% Mask input
if FA.setMask
... |
github | ivan-usov/FiberApp-master | ForkData.m | .m | FiberApp-master/+FiberAppGUI/ForkData.m | 1,133 | utf_8 | 30feba9070ecc4163afb400564aee5f8 | %FORKDATA "Fork Data" menu item callback
% Copyright (c) 2011-2014 ETH Zurich, 2015 FiberApp Contributors. All rights reserved.
% Use of this source code is governed by a BSD-style license that can be found in the LICENSE file.
function ForkData(hObject, eventdata)
% Get address of the file to split data from
[fileN... |
github | ivan-usov/FiberApp-master | RemoveMask.m | .m | FiberApp-master/+FiberAppGUI/RemoveMask.m | 604 | utf_8 | 2a322bc70a6403d487ad565368f1de95 | %REMOVEMASK "Remove Mask" menu item callback
% Copyright (c) 2011-2014 ETH Zurich, 2015 FiberApp Contributors. All rights reserved.
% Use of this source code is governed by a BSD-style license that can be found in the LICENSE file.
function RemoveMask(hObject, eventdata)
FA = guidata(hObject);
% Check if there is se... |
github | ivan-usov/FiberApp-master | AddMask.m | .m | FiberApp-master/+FiberAppGUI/AddMask.m | 829 | utf_8 | ef7ad08886b97100783800774a4365e5 | %ADDMASK "Add Mask" menu item callback
% Copyright (c) 2011-2014 ETH Zurich, 2015 FiberApp Contributors. All rights reserved.
% Use of this source code is governed by a BSD-style license that can be found in the LICENSE file.
function AddMask(hObject, eventdata)
FA = guidata(hObject);
% Check if there is selected fi... |
github | ivan-usov/FiberApp-master | ScaleBarImage.m | .m | FiberApp-master/+FiberAppGUI/ScaleBarImage.m | 1,044 | utf_8 | bae69a5c79960f9fdffa9d13d2eb31c7 | %SCALEBARIMAGE "Scale Bar" menu item callback
% Copyright (c) 2011-2014 ETH Zurich, 2015 FiberApp Contributors. All rights reserved.
% Use of this source code is governed by a BSD-style license that can be found in the LICENSE file.
function ScaleBarImage(hObject, eventdata)
FA = guidata(hObject);
% Promote a user t... |
github | ivan-usov/FiberApp-master | OpenData.m | .m | FiberApp-master/+FiberAppGUI/OpenData.m | 1,597 | utf_8 | 835011f69d947e7ff06d8229594b8d53 | %OPENDATA "Open Data" menu item callback
% Copyright (c) 2011-2014 ETH Zurich, 2015 FiberApp Contributors. All rights reserved.
% Use of this source code is governed by a BSD-style license that can be found in the LICENSE file.
function isOpened = OpenData(hObject, eventdata)
FA = guidata(hObject);
% Check for new m... |
github | ivan-usov/FiberApp-master | About.m | .m | FiberApp-master/+FiberAppGUI/About.m | 759 | utf_8 | 1793821d16584758921d2fde277c3537 | %ABOUT "About FiberApp" menu item callback
% Copyright (c) 2011-2014 ETH Zurich, 2015 FiberApp Contributors. All rights reserved.
% Use of this source code is governed by a BSD-style license that can be found in the LICENSE file.
function About(hObject, eventdata)
aboutFig = figure('NumberTitle', 'off', 'MenuBar', '... |
github | ivan-usov/FiberApp-master | InvertImage.m | .m | FiberApp-master/+FiberAppGUI/InvertImage.m | 416 | utf_8 | 96f989466ee9d351ca83ebf557694de3 | %INVERTIMAGE "Invert Image" menu item callback
% Copyright (c) 2011-2014 ETH Zurich, 2015 FiberApp Contributors. All rights reserved.
% Use of this source code is governed by a BSD-style license that can be found in the LICENSE file.
function InvertImage(hObject, eventdata)
FA = guidata(hObject);
% Invert image
FA.... |
github | ivan-usov/FiberApp-master | MSE2ED.m | .m | FiberApp-master/+algorithm/MSE2ED.m | 947 | utf_8 | aa3782241cb3220e140599d630732386 | %MSE2ED Calculate mean-squared end-to-end distance
% Copyright (c) 2011-2014 ETH Zurich, 2015 FiberApp Contributors. All rights reserved.
% Use of this source code is governed by a BSD-style license that can be found in the LICENSE file.
function [xdata, ydata, count] = MSE2ED(data, step, procStepNum)
xdata = step*(1... |
github | ivan-usov/FiberApp-master | BCF.m | .m | FiberApp-master/+algorithm/BCF.m | 983 | utf_8 | 7e97b9516de198c805ecbb88bc61fdb2 | %BCF Calculate bond correlation function
% Copyright (c) 2011-2014 ETH Zurich, 2015 FiberApp Contributors. All rights reserved.
% Use of this source code is governed by a BSD-style license that can be found in the LICENSE file.
function [xdata, ydata, count] = BCF(data, step, procStepNum)
xdata = step*(1:procStepNum)... |
github | ivan-usov/FiberApp-master | OP2D.m | .m | FiberApp-master/+algorithm/OP2D.m | 4,641 | utf_8 | 6c8b988f72d309f95aadcd46f7fdf327 | %OP2D Calculate 2D Order Parameter vs a box size
% Copyright (c) 2011-2014 ETH Zurich, 2015 FiberApp Contributors. All rights reserved.
% Use of this source code is governed by a BSD-style license that can be found in the LICENSE file.
function [xdata, ydata] = OP2D(p_all, v_all, xMin, yMin, ...
gridStep, procSte... |
github | ivan-usov/FiberApp-master | MSMD.m | .m | FiberApp-master/+algorithm/MSMD.m | 1,053 | utf_8 | 0fa0e4080c2224347169791f00f52f3b | %MSMD Calculate mean-squared midpoint displacement
% Copyright (c) 2011-2014 ETH Zurich, 2015 FiberApp Contributors. All rights reserved.
% Use of this source code is governed by a BSD-style license that can be found in the LICENSE file.
function [xdata, ydata, count] = MSMD(data, step, procStepNum)
xdata = step*(1:p... |
github | YuvalNirkin/opencv_contrib-master | modelConvert.m | .m | opencv_contrib-master/doc/tutorials/ximgproc/training/scripts/modelConvert.m | 2,117 | utf_8 | dd8b0dc376b1da49ced7529a9e3a7723 | function modelConvert(model, outname)
%% script for converting Piotr's matlab model into YAML format
outfile = fopen(outname, 'w');
fprintf(outfile, '%%YAML:1.0\n\n');
fprintf(outfile, ['options:\n'...
' numberOfTrees: 8\n'...
' numberOfTreesToEvaluate: 4\n'...
... |
github | YuvalNirkin/opencv_contrib-master | modelConvert.m | .m | opencv_contrib-master/modules/ximgproc/tutorials/scripts/modelConvert.m | 2,117 | utf_8 | dd8b0dc376b1da49ced7529a9e3a7723 | function modelConvert(model, outname)
%% script for converting Piotr's matlab model into YAML format
outfile = fopen(outname, 'w');
fprintf(outfile, '%%YAML:1.0\n\n');
fprintf(outfile, ['options:\n'...
' numberOfTrees: 8\n'...
' numberOfTreesToEvaluate: 4\n'...
... |
github | maiwinstrup/StratiCounter-master | cdftransform.m | .m | StratiCounter-master/Subroutines/preprocessing/cdftransform.m | 2,759 | utf_8 | 8d36b7a9fe642c8c623c6ef5559b87e7 | function ynew = cdftransform(x,y,L,plotlevel)
%% ynew = cdftransform(x,y,L,plotlevel)
% Performing a CDF-transform ("Cummulative Distribution Function") on data.
% The CDF is defined the following way: Each data point is indexed in
% ascending order, and given a value corresponding to its index. In this
% way, high ... |
github | maiwinstrup/StratiCounter-master | preprocessdata.m | .m | StratiCounter-master/Subroutines/preprocessing/preprocessdata.m | 5,249 | utf_8 | 9c44876485e2789dc6447dd3a0e16556 | function [data1,hfig] = preprocessdata(data0,depth,preprocsteps,plotlevel,...
species,layercounts)
%% [data1,hfig] = preprocessdata(data0,depth,preprocsteps,plotlevel,species,...
%% layercounts)
% Preprocessing a (single) data series to obtain the best identifiable
% annual layer signal in the data. "Species" an... |
github | maiwinstrup/StratiCounter-master | matchmakerdata.m | .m | StratiCounter-master/Subroutines/matchmaker/matchmakerdata.m | 2,248 | utf_8 | 93ba7a5ac00d49f03b46ab1e09a8f41f | function matchmakerdata(species,Model,datafilename)
%% matchmakerdata(species,Model,datafilename)
% Save unprocessed datafiles in matchmaker format.
nSpecies = length(species);
data0 = loadrawdata(species{1},Model.path2data);
% Data:
data{1}=data0(:,2);
species{1}=species{1};
% Depth:
depth{1}=data0(:,1);
depth_no(... |
github | maiwinstrup/StratiCounter-master | matchmaker.m | .m | StratiCounter-master/Subroutines/matchmaker/matchmaker.m | 37,328 | utf_8 | aec6b1aa9ee692af88c99b954558ab3b | function matchmaker(varargin)
% ------------------------------------------------------------------------
% MATCHMAKER version 2.03, 22 April 2010, Sune Olander Rasmussen
% Copyright (C) Sune Olander Rasmussen
% MATCHMAKER syntax : matchmaker(filenames, datafileID, numberofpanels);
% filenames Name of .m file ... |
github | maiwinstrup/StratiCounter-master | matchmaker_evaluate.m | .m | StratiCounter-master/Subroutines/matchmaker/matchmaker_evaluate.m | 14,844 | utf_8 | 44c316aedcf0e154efb19d034822cd29 | function matchmaker_evaluate(varargin)
%
% MATCHMAKER_EVALUATE version 2.00, 16 March 2006,
% Copyright (C) Sune Olander Rasmussen
% MATCHMAKER_EVALUATE is designed to be called from MATCHMAKER.
switch nargin
case {0, 1, 2}% Only for development purposes
disp('MATCHMAKER_EVALUATE needs input arguments, an... |
github | maiwinstrup/StratiCounter-master | constructmanualtemplates.m | .m | StratiCounter-master/Subroutines/layertemplates/constructmanualtemplates.m | 8,971 | utf_8 | b80d9627c7f7e247621f4aa22ce2b603 | function [Template_all, TemplateInfo_all, Model] = ...
constructmanualtemplates(Data,Model,outputdir,Runtype)
%% [Template_all, TemplateInfo_all, Model] = ...
% constructmanualtemplates(Data,Model,outputdir,Runtype)
% Compute array of layer templates for all species corresponding to the
% manual layer counts in... |
github | maiwinstrup/StratiCounter-master | calclayerpar.m | .m | StratiCounter-master/Subroutines/layertemplates/calclayerpar.m | 14,720 | utf_8 | fdf0eff1a08d1e81291bdfc6dc389b96 | function [Layerpar0, ParML, ParMAP, Layerpar_individual] = ...
calclayerpar(Model,Data,layerpos,layerunc,Template,Runtype)
%% [Layerpar0,ParML,ParMAP,layerpar] = ...
% calclayerpar(Model,Data,layerpos,layerunc,Template,Runtype)
% Computing maximum likelihood (ML) and maximum a posteriori (MAP) layer
% paramete... |
github | maiwinstrup/StratiCounter-master | stacklayers.m | .m | StratiCounter-master/Subroutines/layertemplates/stacklayers.m | 3,295 | utf_8 | 19cbb1f803f07244a8a4fa7f857b8d5f | function [stack, dlayer] = stacklayers(depth,data,layercounts,unc_layercounts,dt)
%% [stack, dlayer] = stacklayers(depth,data,layercounts,unc_layercounts,dt):
% Stacking data as annual layers. All layers are linearly interpolated to
% have the same length, with each data point corresponding to timestep dt.
% dlayer ... |
github | maiwinstrup/StratiCounter-master | layerstructure.m | .m | StratiCounter-master/Subroutines/layertemplates/layerstructure.m | 6,250 | utf_8 | cb115ba6225b3b925578bcc79642d356 | function [Template, TemplateInfo] = ...
layerstructure(data,depth,layercounts,unc_layercounts,Model,Runtype)
%% [Template, TemplateInfo] = ...
% layerstructure(data,depth,layercounts,unc_layercounts,Model,Runtype)
% Calculating a template for an annual layer in the data file. Presently,
% layers can only be ch... |
github | maiwinstrup/StratiCounter-master | batchlayerprobabilities.m | .m | StratiCounter-master/Subroutines/batchresults/batchlayerprobabilities.m | 5,887 | utf_8 | cc468aafaf1eb98937b87e38b15bb90b | function [ntau, ntauTotal, LayerProbDist] = ...
batchlayerprobabilities(depth,FBprob,tau,Layer0,prctile,plotlevel)
%% [ntau, ntauTotal, LayerProbDist] = batchlayerprobabilities(depth,FBprob,...
% tau,Layer0,prctile,plotlevel)
% Calculating the probability distribution of number of layers in current
% batch (nta... |
github | maiwinstrup/StratiCounter-master | lastlayerpos.m | .m | StratiCounter-master/Subroutines/batchresults/lastlayerpos.m | 2,490 | utf_8 | 03bc710100f7bdfba6585066c9d1b813 | function postau = lastlayerpos(FBprob,tau,d,zerolimit,tstart,plotlevel)
%% postau = lastlayerpos(FBprob,tau,d,zerolimit,tstart,plotlevel)
% Calculating the probabilities corresponding to where ends the last layer
% before the layer in pixel tau (i.e. "layer j0" of next batch).
% Copyright (C) 2015 Mai Winstrup
%% D... |
github | maiwinstrup/StratiCounter-master | forwardbackward.m | .m | StratiCounter-master/Subroutines/algorithm/forwardbackward.m | 12,345 | utf_8 | 0cddf726d32b4cb19130922088c17e54 | function [logalpha_bar,logbeta,eta2,eta2_bar,gamma2,layerpos,...
layerpos_issues,logPobs] = forwardbackward(logb,logpd,layer0_pos,...
T,d,dmax,D,nLayerMax,tiepoints,plotlevel)
%% [logalpha_bar,logbeta,eta2,eta2_bar,gamma2,layerpos,layerpos_issues,...
% logPobs] = forwardbackward(logb,logpd,layer0_pos,T,d,dm... |
github | maiwinstrup/StratiCounter-master | likelihoodBLR.m | .m | StratiCounter-master/Subroutines/algorithm/likelihoodBLR.m | 7,158 | utf_8 | 13ee807efbda3e502b23128b5c99ad78 | function [logb, ExpVal] = likelihoodBLR(data,Template,Layerpar,d,i0,Model)
%% [logb, ExpVal] = likelihoodBLR(data,Template,Layerpar,d,i0,Model):
% Calculating the log-likelihood that the observation sequence from t1 to
% t2 spans exactly one year:
% logb(t2,d,species j) = log(P(obs(t1:t2) | S([t1:t2])= 1 year)),
% wi... |
github | maiwinstrup/StratiCounter-master | showtimescale.m | .m | StratiCounter-master/Subroutines/showresults/showtimescale.m | 6,879 | utf_8 | 558a4320e52f9fd82362ac36ded9dcb6 | function hfig = showtimescale(timescale,timescale1yr,manualcounts,dbatch,...
Model,filename)
%% hfig = showtimescale(timescale,timescale1yr,manualcounts,dbatch,...
% Model,filename)
% Plot the resulting timescale, and its associated uncertainties, as
% function of depth. If manual counts exist, these are plotte... |
github | LeventhalLab/Development-master | Canolty_comodulogram_print.m | .m | Development-master/ChoiceTask/LFPs/explore/Canolty_comodulogram_print.m | 5,911 | utf_8 | 92dd6487432e7ae10a8b29ca639849cd | % save('Canolt_comodulogram_20190122','corrMatrix_rho','corrMatrix_pval','shuff_corrMatrix_rho_mean','shuff_corrMatrix_pval',...
% 'eventFieldnames_wFake','freqList','nShuff');
function h = Canolty_comodulogram_print(corrMatrix_rho,shuff_corrMatrix_rho_mean,useSessions,...
eventFieldnames,freqList)
doPlot_allEven... |
github | LeventhalLab/Development-master | wholeSessionSpikeSTA.m | .m | Development-master/ChoiceTask/LFPs/explore/wholeSessionSpikeSTA.m | 11,078 | utf_8 | cce7ef092171c799fce7f5a70479fa77 | % create session-wide SDE z-scores
compileTs = false;
compileWs = false;
doBurst = false;
% % if compileTs
% % [uniqueSession,ic,ia] = unique(analysisConf.sessionNames);
% % sessionTs = {};
% % tsEndArr = [];
% % for iNeuron = 1:366
% % iSession = ia(iNeuron);
% % if numel(sessionTs) < ... |
github | LeventhalLab/Development-master | zScoreScalogram.m | .m | Development-master/ChoiceTask/LFPs/utils/zScoreScalogram.m | 1,471 | utf_8 | ba4094ebfbd1dfe505aace4ba3a8c4e4 | function [zMean,zStd,zFreqs] = zScoreScalogram(sevFilt,Fs,tWindow,freqList)
zFreqs = freqList;
nSamples = 500;
% generate surrogate trial times
tWindowSamples = round(tWindow * Fs);
data = [];
all_W = [];
iTrial = 1;
all_centerSample = [];
while iTrial < nSamples + 1
centerSample = randsample(1+tWindowSamples:nume... |
github | LeventhalLab/Development-master | pval_adjust.m | .m | Development-master/ChoiceTask/LFPs/utils/pval_adjust.m | 4,604 | utf_8 | 1d57972582ea9d917069fcd7ac486822 | function pc = pval_adjust(p, method)
% PVAL_ADJUST Adjust p-values for multiple comparisons. Given a set of
% p-values, returns p-values adjusted using one of several methods. This is
% an implementation of the p.adjust R function, the documentation of which
% can be found at http://www.inside-r.org/r-doc/stats/p.adjus... |
github | LeventhalLab/Development-master | allfitdist.m | .m | Development-master/ChoiceTask/LFPs/utils/allfitdist.m | 14,068 | utf_8 | c97911c7950da43539c02a6eb3beff8e | function [D PD] = allfitdist(data,sortby,varargin)
%ALLFITDIST Fit all valid parametric probability distributions to data.
% [D PD] = ALLFITDIST(DATA) fits all valid parametric probability
% distributions to the data in vector DATA, and returns a struct D of
% fitted distributions and parameters and a struct of o... |
github | LeventhalLab/Development-master | createSDEstruct.m | .m | Development-master/ChoiceTask/LFPs/utils/createSDEstruct.m | 1,738 | utf_8 | 5736a123ccd5c0d50ebf71a03fa7acc2 | function [all_SDEs,all_MTs,all_RTs,all_trialIds] = createSDEstruct(all_trials,all_ts,eventFieldnames)
all_SDEs = {};
all_tsPeths = {};
all_MTs = {};
all_RTs = {};
tWindow = 2;
for iNeuron = 1:numel(all_ts)
curTrials = all_trials{iNeuron};
curTs = all_ts{iNeuron};
% % trialIdInfo = organizeTrialsById(curT... |
github | LeventhalLab/Development-master | workon.m | .m | Development-master/ChoiceTask/LFPs/utils/workon.m | 1,432 | utf_8 | d3a7228a64db6aecb7b53bc90861679c | function workon(openArr)
% (list) >> workon
% (open) >> workon(1)
% (open) >> workon([2,3,6,14])
% (open) >> workon(1:7)
limitTo = 15; % # of files
listing = dir('**/*.m');
[~,idx] = sort([listing.datenum],'descend');
if ~exist('openArr','var')
clc;
headerT... |
github | LeventhalLab/Development-master | curateTrials.m | .m | Development-master/ChoiceTask/LFPs/utils/curateTrials.m | 2,532 | utf_8 | 52ee1800cf1d24fcfe031be5fb16c21c | function [trials,trialsMap] = curateTrials(trials,sevFilt,Fs,eventName)
% passing in only successful trials
trialTimeRanges = getTrialTimes(trials);
minTime = min(trialTimeRanges(:,1));
maxTime = max(trialTimeRanges(:,2));
% check real event compliance
% recursive add event until compliant
trialCount = 0;
trialsMap = ... |
github | LeventhalLab/Development-master | circ_kuipertest.m | .m | Development-master/ChoiceTask/LFPs/utils/CircStat2012a/circ_kuipertest.m | 3,076 | utf_8 | 17975f8427b61f430b01b39bea0a0b92 | function [pval, k, K] = circ_kuipertest(alpha1, alpha2, res, vis_on)
% [pval, k, K] = circ_kuipertest(sample1, sample2, res, vis_on)
%
% The Kuiper two-sample test tests whether the two samples differ
% significantly.The difference can be in any property, such as mean
% location and dispersion. It is a c... |
github | LeventhalLab/Development-master | circ_clust.m | .m | Development-master/ChoiceTask/LFPs/utils/CircStat2012a/circ_clust.m | 3,346 | utf_8 | 09f16d972b35b7b7b55b361710748587 | function [cid, alpha, mu] = circ_clust(alpha, numclust, disp)
%
% [cid, alpha, mu] = circClust(alpha, numclust, disp)
% Performs a simple agglomerative clustering of angular data.
%
% Input:
% alpha sample of angles
% numclust number of clusters desired, default: 2
% disp show plot at each ste... |
github | LeventhalLab/Development-master | circ_raotest.m | .m | Development-master/ChoiceTask/LFPs/utils/CircStat2012a/circ_raotest.m | 4,132 | utf_8 | a088b9d557b94032992d192ef76b8fd4 | function [p U UC] = circ_raotest(alpha)
% [p U UC] = circ_raotest(alpha)
% Calculates Rao's spacing test by comparing distances between points on
% a circle to those expected from a uniform distribution.
%
% H0: Data is distributed uniformly around the circle.
% H1: Data is not uniformly distributed around th... |
github | LeventhalLab/Development-master | circ_cmtest.m | .m | Development-master/ChoiceTask/LFPs/utils/CircStat2012a/circ_cmtest.m | 2,127 | utf_8 | b8057e2fbbbaef56584aa347fe5c81cd | function [pval med P] = circ_cmtest(varargin)
%
% [pval, med, P] = circ_cmtest(alpha, idx)
% [pval, med, P] = circ_cmtest(alpha1, alpha2)
% Non parametric multi-sample test for equal medians. Similar to a
% Kruskal-Wallis test for linear data.
%
% H0: the s populations have equal medians
% HA: the s pop... |
github | LeventhalLab/Development-master | circ_wwtest.m | .m | Development-master/ChoiceTask/LFPs/utils/CircStat2012a/circ_wwtest.m | 4,669 | utf_8 | 2fa4cad8c08ca9d37b358392c2a3fa99 | function [pval table] = circ_wwtest(varargin)
% [pval, table] = circ_wwtest(alpha, idx, [w])
% [pval, table] = circ_wwtest(alpha1, alpha2, [w1, w2])
% Parametric Watson-Williams multi-sample test for equal means. Can be
% used as a one-way ANOVA test for circular data.
%
% H0: the s populations have equal m... |
github | LeventhalLab/Development-master | phasebar.m | .m | Development-master/ChoiceTask/LFPs/utils/phasemap/phasebar.m | 7,560 | utf_8 | 3475160dbae8126640617164190c4096 | function ax = phasebar(varargin)
% phasebar places a circular donunt-shaped colorbar for phase
% from -pi to pi or -180 degrees to 180 degrees.
%
%% Syntax
%
% phasebar
% phasebar(...,'location',Location)
% phasebar(...,'size',Size)
% phasebar('deg')
% phasebar('rad')
% ax = phasebar(...)
%
%% Descript... |
github | LeventhalLab/Development-master | cmocean.m | .m | Development-master/ChoiceTask/LFPs/utils/cmocean/cmocean.m | 412,498 | utf_8 | 64baf051092febba74e5e47706efdd95 | function cmap = cmocean(ColormapName,varargin)
% cmocean returns perceptually-uniform colormaps created by Kristen Thyng.
%
%% Syntax
%
% cmocean
% cmap = cmocean('ColormapName')
% cmap = cmocean('-ColormapName')
% cmap = cmocean(...,NLevels)
% cmap = cmocean(...,'pivot',PivotValue)
% cmap = cmocean(...,... |
github | LeventhalLab/Development-master | LFP_byX.m | .m | Development-master/ChoiceTask/LFPs/print/LFP_byX.m | 13,447 | utf_8 | 1e55b31aa8b80d4a3ccb121678ef39a1 | if ~exist('all_trials')
load('session_20180919_NakamuraMRL.mat', 'LFPfiles_local')
load('session_20180919_NakamuraMRL.mat', 'LFPfiles_local_alt')
load('session_20180919_NakamuraMRL.mat', 'selectedLFPFiles')
load('session_20180919_NakamuraMRL.mat', 'all_trials')
load('session_20180919_NakamuraMRL.mat... |
github | LeventhalLab/Development-master | spikeLFPxcorrBySession.m | .m | Development-master/ChoiceTask/LFPs/print/spikeLFPxcorrBySession.m | 14,510 | utf_8 | 663c08a001f6c1f03f9271c57fe7d868 | doSetup = false;
doDebug = false;
doPlot = false;
nSurr = 100;
zThresh = 2;
freqList = logFreqList([1 200],10);
ytickIds = 1:numel(freqList);
ytickLabelText = num2str(freqList(:),'%1.2f');
% % ytickIds = [1 closest(freqList,20) closest(freqList,55) numel(freqList)]; % selected from freqList
% % ytickLabelText = freqLis... |
github | LeventhalLab/Development-master | print_LFPs.m | .m | Development-master/ChoiceTask/LFPs/print/print_LFPs.m | 4,458 | utf_8 | 62cef4670605271beec75de2060c4b72 | function print_LFPs(LFPfiles,all_trials,eventFieldnames,tWindow_vis)
% !! freqList is now passed into function, need to established that
% UPDATE!!
savePath = '/Users/mattgaidica/Documents/Data/ChoiceTask/LFPs/perievent/LFP';
sevFile = '';
tWindow = 1;
pxHeight = 150;
allFrames = [];
for iNeuron = 1:numel(LFPfiles)
... |
github | LeventhalLab/Development-master | entrainment_HighResolution.m | .m | Development-master/ChoiceTask/LFPs/print/entrainment_HighResolution.m | 12,332 | utf_8 | 0446c746a784cc5bf406271fcb3d27db | % close all;
% load('20190313_highresEntrainment_altWires.mat')
doSave = false;
doPlot_pvalDist = false;
doPlot_MRLs = false;
doPlot_kuiper = false;
doPlot_MRLmontage = false;
doPlot_mats = false;
doPlot_bars = true;
useLines = true; % for doPlot_bars
conds_pvals = {squeeze(all_spikeHist_pvals_surr(1,:,:,:)),all_spi... |
github | LeventhalLab/Development-master | Fig01_BEHAVIORSPECT_setup.m | .m | Development-master/ChoiceTask/LFPs/Figures/Fig01_BEHAVIORSPECT_setup.m | 3,913 | utf_8 | 06787bbca23b3034d4e39db479216c75 | % code from simpleFFT.m
% load('session_20180925_entrainmentSurrogates.mat', 'LFPfiles_local')
% load('session_20180925_entrainmentSurrogates.mat', 'selectedLFPFiles')
% load('session_20180925_entrainmentSurrogates.mat', 'all_trials')
% load('session_20180925_entrainmentSurrogates.mat', 'eventFieldnames')
savePath = '... |
github | LeventhalLab/Development-master | extractWaveforms.m | .m | Development-master/ChoiceTask/Manuscript/extractWaveforms.m | 3,244 | utf_8 | 9138ce71bd3f63ee4ce7e7d6272c683f | function [waveforms,sameWire,wireLabels] = extractWaveforms(analysisConf,all_ts)
% waveforms: m units x n mean waveform data points (+/- 2 ms, in uV)
% sameWire: m units x n wires, where units on same wire are logical 1
% wireLabels: 1 x n wires, string/name for each wire
disp('!!! This function ne... |
github | LeventhalLab/Development-master | RTMT_corrMatrix.m | .m | Development-master/ChoiceTask/Manuscript/RTMT_corrMatrix.m | 26,303 | utf_8 | 7903b4bd50cbe3af01b6e7fda5395f79 | function RTMT_corrMatrix()
if ismac
savePath = '/Users/mattgaidica/Box Sync/Leventhal Lab/Manuscripts/Thalamus_behavior_2017/Figures/MATLAB/RTMT';
uSessionsPath = '/Users/mattgaidica/Documents/MATLAB/LeventhalLab/Development/ChoiceTask/temp/uSessions';
else
savePath = 'C:\Users\Administr... |
github | LeventhalLab/Development-master | sideOutDirection.m | .m | Development-master/ChoiceTask/Manuscript/sideOutDirection.m | 2,405 | utf_8 | 1b53c3c8dfca4b94e6b07cfa9e999356 | function sideOutDirection(analysisConf,all_trials)
excludeSessions = {'R0142_20161207a','R0117_20160508a','R0117_20160510a'}; % corrupt video
% get all unique sessions
[sessionNames,IA] = unique(analysisConf.sessionNames);
for iSession = 1:numel(sessionNames)
sessionConf = analysisConf.sessionCo... |
github | LeventhalLab/Development-master | meanScalogram.m | .m | Development-master/ChoiceTask/Manuscript/Analysis/meanScalogram.m | 2,025 | utf_8 | bb21831c704c4dc4cad715b54e18b9dd | % function [meanScalo, stdScalo, log_meanScalo, log_stdScalo] = meanScalogram(sevFilt,tWindow,scaloWindow,Fs,freqList,num_iterations)
function [allScalo] = meanScalogram(sevFilt,tWindow,scaloWindow,Fs,freqList,num_iterations)
% lfpThresh = 0.5e6; % diff uV^2, *this depends on decimate factor, need to generalize it
lfp... |
github | LeventhalLab/Development-master | addUnitHeader.m | .m | Development-master/ChoiceTask/Manuscript/Analysis/Formatting/addUnitHeader.m | 2,663 | utf_8 | 32b67eb99c47e4090ae1bcbb6cf0674c | function addUnitHeader(analysisConf,analyses)
unitHeaderFolder = 'unitHeader';
prependString = 'HEADER-';
for iAnalysis = 1:length(analyses)
for iSession = 1:length(analysisConf.sessionConfs)
analysisPathTemp = fullfile(analysisConf.sessionConfs{iSession}.leventhalPaths.analysis,analyses... |
github | LeventhalLab/Development-master | setFig.m | .m | Development-master/ChoiceTask/Helpers/setFig.m | 1,509 | utf_8 | 4312f2f71cb294de85c9b9315698d7ea | % init:
% % subplotMargins = [.05,.02];
% % figPath = '/Users/mattgaidica/Box Sync/Leventhal Lab/Manuscripts/Thalamus_behavior_2017/Figures/MATLAB';
function setFig(xlabelVal,ylabelVal,cols)
set(groot,{'DefaultAxesXColor','DefaultAxesYColor','DefaultAxesZColor'},{'k','k','k'});
set(gcf,'color','w');
if exist('xlabelV... |
github | LeventhalLab/Development-master | lfpVideo.m | .m | Development-master/ChoiceTask/Helpers/lfpVideo.m | 12,878 | utf_8 | bbd9b01334b1da48c00269279b161472 | function lfpVideo(sessionConf,nexStruct,lfpChannels,neurons)
tic
FigureVisible = 'on';
% get video
leventhalPaths = buildLeventhalPaths(sessionConf);
videos = dir(fullfile(leventhalPaths.rawdata,'*.avi'));
if isempty(videos)
error('novideo');
end
video = VideoReader(fullfile(leve... |
github | LeventhalLab/Development-master | successPETHs.m | .m | Development-master/ChoiceTask/Helpers/Hannah/successPETHs.m | 3,160 | utf_8 | dd71d6a2c90d15d05176a5559ea0de7b | function successPETHs(nexStruct, trials)
%Function to create PETHs for the successful events
%Declare constants
pethHalfWidth = 2;
histBin = 50;
fontSize = 6;
%Get the event names from the nexStruct
compiledEvents = loadCompiledEvents();
neuronEventFieldnames = fieldnames(compiledE... |
github | LeventhalLab/Development-master | poissonSurprise.m | .m | Development-master/ChoiceTask/Helpers/Hannah/poissonSurprise.m | 1,427 | utf_8 | eba520e9f55d7abf5b642529533d2b64 | %poissonSurprise.m
%Burst detector using the Poisson Surprise method
%Input: time stamps
function poissonSurprise(ts)
threshSurprise = 3;
width = 20; %s
minNumSpikes = 3;
interval = .5; %s
endTime = ts(length(ts));
sValues = [];
times = [];
aveFR = length(ts)/(ts(length(ts)) - ts(1));
%Plot the time stamps
subplot(21... |
github | LeventhalLab/Development-master | fillPage.m | .m | Development-master/ChoiceTask/Helpers/Third Party/fillPage.m | 6,457 | utf_8 | 28a75fba328ad6b65dcfa6cd61581f12 | function oldSettings = fillPage(h, varargin)
%FILLPAGE set figure h to fill a page when printed/exported
% FILLPAGE will adjust printing/exporting related properties so the
% figure (h) will take up a full page when printed/exported. Optional
% arguments (varargin) allow you to adjust the margins and page siz... |
github | LeventhalLab/Development-master | patchline.m | .m | Development-master/ChoiceTask/Helpers/Third Party/patchline.m | 3,812 | utf_8 | eb106a55c884f31c460bacfead7472aa | function p = patchline(xs,ys,varargin)
% Plot lines as patches (efficiently)
%
% SYNTAX:
% patchline(xs,ys)
% patchline(xs,ys,zs,...)
% patchline(xs,ys,zs,'PropertyName',propertyvalue,...)
% p = patchline(...)
%
% PROPERTIES:
% Accepts all parameter-values accepted by PATCH.
%
% DESCRI... |
github | LeventhalLab/Development-master | smoothn.m | .m | Development-master/ChoiceTask/Helpers/Third Party/smoothn.m | 28,084 | utf_8 | d144281b4948898f62fca23f53ed669a | function [z,s,exitflag] = smoothn(varargin)
%SMOOTHN Robust spline smoothing for 1-D to N-D data.
% SMOOTHN provides a fast, automatized and robust discretized spline
% smoothing for data of arbitrary dimension.
%
% Z = SMOOTHN(Y) automatically smoothes the uniformly-sampled array Y. Y
% can be any N-D ... |
github | LeventhalLab/Development-master | y_to_norm_v2.m | .m | Development-master/ChoiceTask/Helpers/Third Party/y_to_norm_v2.m | 3,353 | utf_8 | f394aafda528b0bd20bc330fca62df5e | %author: Girish Ratanpal, ECE, UVa.
%transform axes units to normalized units for 2-D figures only.
%works for linear,log scales and also reverse axes.
%DATE: JAN. 6, 2006. previous version: aug 12, 2005.
%
%
%FUNCTION DESCRIPTION:
% function [y_norm] = y_to_norm_v2(y_begin,y_end)
% function returns a 1x2 array, y_no... |
github | LeventhalLab/Development-master | burst.m | .m | Development-master/ChoiceTask/Helpers/Third Party/burst.m | 4,251 | utf_8 | 9795e9783653091a5b5c554bec35a3da | function ...
[archive_burst_RS,archive_burst_length,archive_burst_start]=burst(tn,limit,RSalpha)
%"Rank Surprise" method for burst detection. Requires statistical toolbox
%of Matlab 6.5 or any program computing the Gaussian CDF.
%
%USE : [archive_burst_RS,archive_burst_length,archive_burst_start]=burst(tn,limit,RSa... |
github | LeventhalLab/Development-master | deleteoutliers.m | .m | Development-master/ChoiceTask/Helpers/Third Party/deleteoutliers.m | 3,493 | utf_8 | a97518a30ca50a19dcfb5e180b3089c7 | function [b,idx,outliers] = deleteoutliers(a,alpha,rep);
% [B, IDX, OUTLIERS] = DELETEOUTLIERS(A, ALPHA, REP)
%
% For input vector A, returns a vector B with outliers (at the significance
% level alpha) removed. Also, optional output argument idx returns the
% indices in A of outlier values. Optional output argum... |
github | LeventhalLab/Development-master | sigstar.m | .m | Development-master/ChoiceTask/Helpers/Third Party/sigstar.m | 8,627 | utf_8 | 789c5cfd2575d3729fbda559d3592fbf | function varargout=sigstar(groups,stats,nosort)
% sigstar - Add significance stars to bar charts, boxplots, line charts, etc,
%
% H = sigstar(groups,stats,nsort)
%
% Purpose
% Add stars and lines highlighting significant differences between pairs of groups.
% The user specifies the groups a... |
github | LeventhalLab/Development-master | pdftops.m | .m | Development-master/ChoiceTask/Helpers/Third Party/exportFig/pdftops.m | 6,574 | utf_8 | d04f5570770cb4e6fdeef06c8a34fdda | function varargout = pdftops(cmd)
%PDFTOPS Calls a local pdftops executable with the input command
%
% Example:
% [status result] = pdftops(cmd)
%
% Attempts to locate a pdftops executable, finally asking the user to
% specify the directory pdftops was installed into. The resulting path is
% stored for futur... |
github | LeventhalLab/Development-master | crop_borders.m | .m | Development-master/ChoiceTask/Helpers/Third Party/exportFig/crop_borders.m | 5,133 | utf_8 | b744bf935914cfa6d9ff82140b48291e | function [A, vA, vB, bb_rel] = crop_borders(A, bcol, padding, crop_amounts)
%CROP_BORDERS Crop the borders of an image or stack of images
%
% [B, vA, vB, bb_rel] = crop_borders(A, bcol, [padding])
%
%IN:
% A - HxWxCxN stack of images.
% bcol - Cx1 background colour vector.
% padding - scalar indicating ... |
github | LeventhalLab/Development-master | isolate_axes.m | .m | Development-master/ChoiceTask/Helpers/Third Party/exportFig/isolate_axes.m | 4,851 | utf_8 | 611d9727e84ad6ba76dcb3543434d0ce | function fh = isolate_axes(ah, vis)
%ISOLATE_AXES Isolate the specified axes in a figure on their own
%
% Examples:
% fh = isolate_axes(ah)
% fh = isolate_axes(ah, vis)
%
% This function will create a new figure containing the axes/uipanels
% specified, and also their associated legends and colorbars. The o... |
github | LeventhalLab/Development-master | im2gif.m | .m | Development-master/ChoiceTask/Helpers/Third Party/exportFig/im2gif.m | 6,769 | utf_8 | 92402e010eade0a1789e9e9ae59c6e07 | %IM2GIF Convert a multiframe image to an animated GIF file
%
% Examples:
% im2gif infile
% im2gif infile outfile
% im2gif(A, outfile)
% im2gif(..., '-nocrop')
% im2gif(..., '-nodither')
% im2gif(..., '-ncolors', n)
% im2gif(..., '-loops', n)
% im2gif(..., '-delay', n)
%
% This function c... |
github | LeventhalLab/Development-master | read_write_entire_textfile.m | .m | Development-master/ChoiceTask/Helpers/Third Party/exportFig/read_write_entire_textfile.m | 961 | utf_8 | 775aa1f538c76516c7fb406a4f129320 | %READ_WRITE_ENTIRE_TEXTFILE Read or write a whole text file to/from memory
%
% Read or write an entire text file to/from memory, without leaving the
% file open if an error occurs.
%
% Reading:
% fstrm = read_write_entire_textfile(fname)
% Writing:
% read_write_entire_textfile(fname, fstrm)
%
%IN:
% fn... |
github | LeventhalLab/Development-master | pdf2eps.m | .m | Development-master/ChoiceTask/Helpers/Third Party/exportFig/pdf2eps.m | 1,703 | utf_8 | b52a84cee0d43fd58ae4d1af1fa7d143 | %PDF2EPS Convert a pdf file to eps format using pdftops
%
% Examples:
% pdf2eps source dest
%
% This function converts a pdf file to eps format.
%
% This function requires that you have pdftops, from the Xpdf suite of
% functions, installed on your system. This can be downloaded from:
% http://xpdfreader.co... |
github | LeventhalLab/Development-master | print2array.m | .m | Development-master/ChoiceTask/Helpers/Third Party/exportFig/print2array.m | 10,477 | utf_8 | 3c1d2b0ec5464854d77d5542b2b7b0ed | function [A, bcol] = print2array(fig, res, renderer, gs_options)
%PRINT2ARRAY Exports a figure to an image array
%
% Examples:
% A = print2array
% A = print2array(figure_handle)
% A = print2array(figure_handle, resolution)
% A = print2array(figure_handle, resolution, renderer)
% A = print2array(figur... |
github | LeventhalLab/Development-master | append_pdfs.m | .m | Development-master/ChoiceTask/Helpers/Third Party/exportFig/append_pdfs.m | 4,694 | utf_8 | 42b32199bef337ae7b10268ea1d587ac | %APPEND_PDFS Appends/concatenates multiple PDF files
%
% Example:
% append_pdfs(output, input1, input2, ...)
% append_pdfs(output, input_list{:})
% append_pdfs test.pdf temp1.pdf temp2.pdf
%
% This function appends multiple PDF files to an existing PDF file, or
% concatenates them into a PDF file if the o... |
github | LeventhalLab/Development-master | using_hg2.m | .m | Development-master/ChoiceTask/Helpers/Third Party/exportFig/using_hg2.m | 1,100 | utf_8 | 47ca10d86740c27b9f6b397373ae16cd | %USING_HG2 Determine if the HG2 graphics engine is used
%
% tf = using_hg2(fig)
%
%IN:
% fig - handle to the figure in question.
%
%OUT:
% tf - boolean indicating whether the HG2 graphics engine is being used
% (true) or not (false).
% 19/06/2015 - Suppress warning in R2015b; cache result for i... |
github | LeventhalLab/Development-master | eps2pdf.m | .m | Development-master/ChoiceTask/Helpers/Third Party/exportFig/eps2pdf.m | 10,558 | utf_8 | 8962221bf56367a42a3416638c9a1202 | function eps2pdf(source, dest, crop, append, gray, quality, gs_options)
%EPS2PDF Convert an eps file to pdf format using ghostscript
%
% Examples:
% eps2pdf source dest
% eps2pdf(source, dest, crop)
% eps2pdf(source, dest, crop, append)
% eps2pdf(source, dest, crop, append, gray)
% eps2pdf(source, de... |
github | LeventhalLab/Development-master | export_fig.m | .m | Development-master/ChoiceTask/Helpers/Third Party/exportFig/export_fig.m | 82,159 | utf_8 | 2725ed47909ae595989cd82fcd5a04e4 | function [imageData, alpha] = export_fig(varargin) %#ok<*STRCL1>
%EXPORT_FIG Exports figures in a publication-quality format
%
% Examples:
% imageData = export_fig
% [imageData, alpha] = export_fig
% export_fig filename
% export_fig filename -format1 -format2
% export_fig ... -nocrop
% export_fig ... |
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