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MATLAB
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31
function [meanwave_intensities,medwave_intensities,wavelength_identities]=avg_acrosspocks(manual_intensities,info) % function to average/ or take the median of all the powers at a given % wavelength subset=info.subset_pockels; numpocks=length(info.pockels); numwaves=size(manual_intensities,2)/numpocks; meanwave_in...
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MATLAB
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function ml_cai_io_scopewriteavi_all( framesToWrite, outputFolder, filenamePrefix, filenameSuffix ) numFramesPerVideo = 1000; numFramesToWrite = size(framesToWrite, 3); if numFramesToWrite < 1 error('No frames to write.'); else fprintf('Writing %d frames to file.\n', numFramesToWr...
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MATLAB
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classdef RGBImage < types.core.Image & types.untyped.DatasetClass % RGBIMAGE A color image. methods function obj = RGBImage(varargin) % RGBIMAGE Constructor for RGBImage obj = obj@types.core.Image(varargin{:}); p = inputParser; p.KeepUnmatched = true; p.P...
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MATLAB
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function [] = checkKeyPress(triggerKey) % We use KbCheck in a while loop instead of KbWait, as KbWait is % reported to be unreliable and would need a device input as well. % % We can either wait for any key press (if triggerKey = 'any') or we % can wait for a specific trigger key (if triggerKey has any other % value) %...
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MATLAB
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function [fb] = fbCreate(numOrient,startSigma,numScales,scaling,elong) % function [fb] = fbCreate(numOrient,startSigma,numScales,scaling,elong) % % Create a filterbank containing numOrient even and odd-symmetric % filters and one center-surround filter at numScales scales. % % The even-symmetric filter is a Gauss...
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MATLAB
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function input_info = cnn_layer_path_merge_backward(input_info, layer, work_info_batch, output_info) assert(input_info.is_group_data); child_num=length(input_info.data_child_groups); data_counter=0; for g_idx=1:child_num one_input_info=input_info.data_child_groups{g_idx}; if one_input_info.is_g...
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MATLAB
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function[img]=get_images(wsFall,Fall,red_wavelength_stack) wsRef=wsFall.ops.meanImg; %w-series ref image (can make whatever you want) fRef=Fall.ops.meanImg_chan2; % functionla ref image fRef_red=Fall.ops.meanImgE; [max_proj,sum_proj]=make_maxproj(red_wavelength_stack); % make a max_projection and sum_projection for...
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MATLAB
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function cleanticks(ax, nkeep, ah) % CLEANTICKS clean up tick labels % CLEANTICKS removes central tick labels from y axis % CLEANTICKS('y') removes central tick labels from y axis % CLEANTICKS('x') removes central tick labels from x axis % CLEANTICKS('x', nkeep) only keeps every 2nth tick if ~exist('ax','va...
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MATLAB
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% f_NotchIIRfilter.m % % Copyright (C) 2015, Miguel Navarrete % % This program is free software: you can redistribute it and/or modify % it under the terms of the GNU General Public License as published by % the Free Software Foundation, either version 3 of the License, or % (at your option) any lat...
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MATLAB
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% Reads, sets or clears specified bits in a filter mask structure % % Implemented through SONFControl.dll % % [VAL FILTERMASK]=SONFCONTROL(FILTERMASK, LAYER, ITEM, ACTION) % % INPUTS: FILTERMASK, filter mask structure % LAYER, the layer to change (0 to 3) or 'ALL' for all layers % ITEM, the item to ...
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MATLAB
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function ind = shiftind(data,shift) % SHIFTIND - % % % Synopsis: % % Description: % % Examples: % % See also: % % Copyright (C) 2006 Juha-Pekka Niskanen <Juha-Pekka.Niskanen@uku.fi> % % Department of Physics, Department of Neurobiology % University of Kuopio, FINLAND % % This program may be used under the terms ...
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MATLAB
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% % Compute a network decomposition on the full network. % % PARAMETERS % $network % $decomposition % % INPUT FILES % dat/data.$network.mat % dat/info.$network % dat/meansi.$network.mat % % OUTPUT FILES % dat/decomposition{,_map}.$decomposition.$network.mat % .D Eigenvalues / Singular value / Middle matrix % .U Ei...
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MATLAB
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function results = vl_test_roc(varargin) % VL_TEST_ROC vl_test_init ; function s = setup() s.scores0 = [5 4 3 2 1] ; s.scores1 = [5 3 4 2 1] ; s.labels = [1 1 -1 -1 -1] ; function test_perfect_tptn(s) [tpr,tnr] = vl_roc(s.labels,s.scores0) ; vl_assert_almost_equal(tpr, [0 1 2 2 2 2] / 2) ; vl_assert_almost_equal(tnr,...
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MATLAB
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function[ChanList]=SONChanList(fid) % SONCHANLIST returns a structure with details of active channels in a SON file % % LIST=SONCHANLIST(FID) % % FID is the file handle. % List is a structure with field for the channel number, kind, title, % comment and the number of physical port data were collected from % Malcolm L...
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MATLAB
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function FlyTrackerWrapper(outmoviefile,num_cores,options) p = mfilename('fullpath'); p = fileparts(p); addpath(genpath(p)); if nargin < 2 || isempty(num_cores), num_cores = maxNumCompThreads; else num_cores = min(num_cores,maxNumCompThreads); end fprintf('num_cores = %d\n',num_cores); options_def.num_cores = ...
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MATLAB
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% mglTestGluDisk: an automated and/or interactive test for rendering. % % usage: mglTestGluDisk(isInteractive) % by: Benjamin Heasly % date: 03/10/2022 % copyright: (c) 2006 Justin Gardner, Jonas Larsson (GPL see mgl/COPYING) % purpose: Test rendering various sizes and shapes of disks. % usa...
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MATLAB
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%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%% % If you use this code, then please cite: % 1.- Ana P. Millan, et al. "Individualized epidemic spreading models % predict epilepsy surgery outcomes: a pseudo-prospective study." % medRxiv (2023): 2023-03. doi: https://doi.org/10.1101/2023.03.16.232873...
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MATLAB
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function [ out ] = aux_afterPoint( obj, str ) % Remove all text before point % % Syntax: % out = AUX_AFTERPOINT( obj, str ); % % Input parameters: % * obj - object containg data % * str % % Output parameters: % out % % Example: % out = AUX_AFTERPOINT( str ); % % Adapted from Yohann Thenaisie 20.12.2020 - La...
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MATLAB
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% f_GetSignalNamesArray(pstr_ChannStr) % function [v_SignalNamesCell] = ... f_GetSignalNamesArray(... pstr_SignalStr, ... ps_MakeUpper) if nargin < 1 return; end if ~exist('ps_MakeUpper', 'var') || isempty(ps_MakeUpper) ps_MakeUpper = 1; end clear v_SignalName...
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MATLAB
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function plotERDERS(datar1,labelr1,lower,higher,sampleRate,butterOrder,smoothPara) %input datar1:3D event EEG data, data format:[sample points*channels* trials] % labelr1:datar1 label % lower:High pass filtering parameter settings % higher:Low pass filtering parameter settings % sampleRate:the samp...
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MATLAB
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plotTimes1 = [-1.5 -1]; plotTimes2 = [-1 -0.5]; whichND = 0; thisTrialTimes = trialTimes{1}; % get indices for start and end time points of comparison, first % time period startInd1 = find(plotTimes1(1) <= thisTrialTimes, 1, 'first'); endInd1 = find(plotTimes1(2) >= thisTrialTimes, 1, 'last'); % get indices for sta...
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MATLAB
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function results = vl_test_liop(varargin) % VL_TEST_SIFT vl_test_init ; function s = setup() randn('state',0) ; s.patch = randn(65,'single') ; xr = -32:32 ; [x,y] = meshgrid(xr) ; s.blob = - single(x.^2+y.^2) ; function test_basic(s) d = vl_liop(s.patch) ; function test_blob(s) % with a blob, all local intensity ord...
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MATLAB
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classdef WEARABLE_EXTERNAL < RECORDINGMODE_COMMONMETHODS % Object with properties and methods to analyse external wearable data % % Available at: https://github.com/NCN-Lab/DBScope % For referencing, please use: Andreia M. Oliveira, Eduardo Carvalho, Beatriz Barros, Carolina Soares, Manuel Ferreira-Pint...
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MATLAB
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% removeTaskFunctionHandles.m % % $Id$ % usage: removeTaskFunctionHandles() % by: justin gardner % date: 09/19/06 % purpose: removes the function handles from task, since % if you load up in another system matlab gives % warnings % copyright: (c) 2006 Justin Gardner...
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MATLAB
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function tests = tutorialTest() tests = functiontests(localfunctions); end function setupOnce(testCase) rootPath = fullfile(fileparts(mfilename('fullpath')), '..', '..'); testCase.applyFixture(matlab.unittest.fixtures.PathFixture(rootPath)); tutorialPath = fullfile(rootPath, 'tutorials'); addpath(tutorialPath); testCa...
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MATLAB
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% netBurstDetection_save.m % saves the result of NB detection function netBurstDetection_save(inputFolder, outputFolder, userParameters, NB, NBpattern) numExp = find_expnum(inputFolder, '_BurstDetectionMAT'); trialFolders = dir(inputFolder); trialNames = {trialFolders(:).name}; % discard . and .. trialNames = trialName...
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MATLAB
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function R2_scaled=scaled_TR_R2(X,Y,normalised_t) %% scaled_TR_R2 scales trajectories X and Y to a normalised_t lenght and %% computes their coefficient of determination % % INPUTS % % X: n-dimensional trajectory. Rows are times, columns are dimensions % % Y: n-dimensional trajectory. Rows are times, columns ...
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MATLAB
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function bij = prune_nodes(aij, nodes) %%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%% % If you use this code, then please cite: % 1.- Ana P. Millan, et al. "Individualized epidemic spreading models % predict epilepsy surgery outcomes: a pseudo-prospective study." % medRxiv (2023): 2023-03. doi: h...
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MATLAB
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% mglNoFlushWait.m % % $Id:$ % usage: mglNoFlushWait() % by: justin gardner % date: 01/20/2013 % purpose: This just waits for the amount of time a frame update should take but does % not actually flush the screen. Made to be used instead of mglFlush. When you % want...
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MATLAB
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function [sc,of,units,points,preTrig]=SONGetADCInfo(fh, chan) % SONGETADCINFO Returns information about an ADC data channel % (scale{,offset{,units{,points{,preTrig}}}})=SONGetADCInfo(fh, chan) % Inputs FH SON file handle % CHAN Channel number 0 to SONMaxChan()-1 % ...
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MATLAB
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% % Plot the network evolution together with the p-value and tendency. % % PARAMETERS % $NETWORK % $STATISTIC % $TYPE full or split % % INPUT % dat/trend.$TYPE.$STATISTIC.$NETWORK.mat % % OUTPUT % plot/trend.$TYPE.$STATISTIC.$NETWORK.eps % network = getenv('NETWORK'); statistic = getenv('STATISTIC'); type = geten...
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MATLAB
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% mglMetalSampleTimestamps.m % % usage: [cpu, gpu, results] = mglMetalSampleTimestamps(socketInfo) % by: Benjamin Heasly % date: 01/30/2024 % copyright: (c) 2006 Justin Gardner, Jonas Larsson (GPL see mgl/COPYING) % purpose: Get a CPU-GPU timestamp pair from the same moment. % % Retur...
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MATLAB
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% mglFLush: Commit a frame of drawing commands and wait for the next frame. % % usage: results = mglFlush(socketInfo) % by: justin gardner % date: 09/27/2021 % copyright: (c) 2021 Justin Gardner (GPL see mgl/COPYING) % purpose: Commit recent drawing commands and wait for the next frame. % us...
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MATLAB
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function [] = rename_individual_worm_images(folder_name, beginIndex, endIndex, shift) % renames the individually saved matrices by shift if beginIndex > endIndex return elseif shift > 0 %shift up shift_indecies = endIndex:-1:beginIndex; elseif shift < 0 %shift down sh...
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MATLAB
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function [d dt pred] = bfs_in_mbgl(A,u) % BFS_IN_MBGL Reimplement the BFS function with MatlabBGL visitors. % % [d dt pred] = bfs_in_mbgl(A,u) % % See BFS % % Example: % load ../graphs/bfs_example.mat % d = bfs_in_mbgl(A,1) ip_d = ipdouble(-ones(num_vertices(A),1)); ip_dt = ipdouble(-ones(num_vertices(A),1)); ...
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MATLAB
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% % Draw the binormalized degree distributions. % % This file is not called beta.m because of the builtin function % beta(). % % PARAMETERS % $NETWORK % % INPUT % dat/data.$NETWORK.mat % % OUTPUT % plot/beta.[auv]{,x}.$NETWORK.dat % a/u/v - All / left / right % "" / "x" - Normalized / non-normalized % network =...
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MATLAB
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function h=sequenceness_results_plot(sfAll, sbAll) nSubj = size(sfAll,1); time_bin = 10; cTime = 0:time_bin:60*time_bin; %% GLM (fwd mean) sf= sfAll; npThresh = squeeze(max((mean(sf(:,2:end,2:end),1)),[],3)); npThreshAll = prctile(npThresh,95); dtp = squeeze(sf(:,1,:)); hh1=shadedErrorBar(cTime, mean(dtp), std(dt...
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MATLAB
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% mglTestPolygon: an automated and/or interactive test for rendering. % % usage: mglTestPolygon(isInteractive) % by: Benjamin Heasly % date: 03/10/2022 % copyright: (c) 2006 Justin Gardner, Jonas Larsson (GPL see mgl/COPYING) % purpose: Test rendering a convex polygon. % usage: % ...
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MATLAB
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function [exist_variance_file dtseries_var_path] = check_exist_variance_file(dtseries_var_path,handles) exist_variance_file=isfile(dtseries_var_path); if exist_variance_file==0 [filepath,name,ext] = fileparts(dtseries_var_path); % alt_dtseries_var_path=[handles.alternative_path_variances filesep n...
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MATLAB
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classdef RGBAImage < types.core.Image & types.untyped.DatasetClass % RGBAIMAGE A color image with transparency. methods function obj = RGBAImage(varargin) % RGBAIMAGE Constructor for RGBAImage obj = obj@types.core.Image(varargin{:}); p = inputParser; p.KeepUnmatc...
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MATLAB
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%% fig3D % load data data_path = '/Users/celia/Documents/two_context_data'; % change this cal = load(fullfile(data_path, 'calcium_20220516_170618/analysis_results.mat')); tet = load(fullfile(data_path, 'tetrodes_20220316_100902/analysis_results.mat')); best_aligned = [cal.analysisResults.BestAligned; tet.analysisResul...
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MATLAB
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% mglTestPoints: an automated and/or interactive test for rendering. % % usage: mglTestPoints(isInteractive) % by: Benjamin Heasly % date: 03/10/2022 % copyright: (c) 2006 Justin Gardner, Jonas Larsson (GPL see mgl/COPYING) % purpose: Test rendering some points. % usage: % % You ...
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MATLAB
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function [precisionType,nBytes] = TDMS_getTypeSeekSizes %TDMS_getTypeSeekSizes Returns information for fread and fseek % % [precisionType,nBytes] = TDMS_getTypeSeekSizes % % For internal use % % precisionType : the string that goes to fread % nBytes : gets multiplied by # of values to know how many byte...
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MATLAB
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function [edges_s,edge_type,myosin2,P] = remove_small_myosin2(r_s,edges_s,edge_type,myosin2,P) % check the length of the myosin rods aux = find(edge_type == 4); d = r_s(edges_s(aux,1),:) - r_s(edges_s(aux,2),:); d = sqrt(dot(d,d,2)); aux_r = find(d < P.min_r2); % remove those myosin rods that ar...
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MATLAB
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function h = vl_demo_kdtree_plot(kdtree, nodeIndex, xlim, ylim) % VL_DEMO_KDTREE_PLOT % Copyright (C) 2007-12 Andrea Vedaldi and Brian Fulkerson. % All rights reserved. % % This file is part of the VLFeat library and is made available under % the terms of the BSD license (see the COPYING file). dim = kdtree.no...
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MATLAB
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% Marc Normandin, Muzzio Lab, Psychological & Brain Sciences, University of Iowa, 2024 function [uniquePairs] = unique_groups_sessions_to_groups(SessionsToGroups) % This mess is just to get a Nx2 cell array of unique combinations of a % groupId and a groupLabel. uniqueGroupLabels = unique(SessionsToGroups....
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MATLAB
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% f_AskSamplesLims.m [Part of HFO Detection Project] % Written by: % Miguel G. Navarrete Mejia % Electrical Engineering MS candidate % UNIVERSIDAD DE LOS ANDES % Colombia, 2012 % mnavarretem@gmail.com function [ps_SampleIni ps_SampleEnd]= f_AskSamplesLims(ps_SampleRate,... ...
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MATLAB
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% searchFolder.m % by Valentina Pasquale, 2008-03-10 % ARGUMENTS: % parentDir: the directory which the algorithm searches in (only 1st level, not every subdirectory) % string: a string that identifies the folder to look for in parentDir % (e.g. SpikeAnalysis, BurstAnalysis) % OUTPUT: % folderPath: the absolute path(s...
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MATLAB
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function [] = ExtDataFig01_Example_TimeCourse_OptStim_Song_dPR1 % Code for plotting the example song trace during optogenetic stimulation in Extended Data Fig. 1f. % TargetFileID = 6; load('../Data/Summary/Mic_20211228_01_2.mat') load('../Data/Summary/OptStim_20211228_01.mat') TargetTrial = 2; % 4-5, 3-2 load('../Dat...
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MATLAB
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function[]=SONTest(file) % SONTEST tests the integrity of a SON File usinf CED's SonFix program. % % SONTEST(FILE) % FILE may be a string or a file identifier % If FILE contains a directory root but no filename or *.smr, all % files in the directory will be tested. % Files currently open for writing within Matlab wil...
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MATLAB
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% ficTracVelocityNoisePlot.m % % quick and dirty script to plot raw FicTrac yaw signal, showing where % oscillations in velocity calculation come from (slight jitter in position % signals are amplified) % % see FicTracVelocityNoise.fig figure saved in 2PAnalysis-Helen folder cd('/Volumes/Samsung_2tb/Wilson Lab/RAW DAT...
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MATLAB
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% SONLASTTIME returns information about the last entry on a channel % before a specified time % % Implemented through SONLastTime.dll % %[time, data, markers, markerflag]=... % SONGETADCDATA(fh, chan, eTime, sTime{, FilterMask}) % % INPUTS: FH SON File Handle % CHAN Channel number (1 t...
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MATLAB
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% mglGluAnnulus - draw annulus/annuli at location x,y % % $Id$ % usage: [ ] = mglGluAnnulus( x, y, isize, osize, color, [nslices], [nloops] ) % by: denis schluppeck % date: 2007-03-19 % copyright: (c) 2006 Justin Gardner, Jonas Larsson (GPL see mgl/COPYING) % inputs: x, y, size, color %...
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MATLAB
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function s = join(d,varargin) %S=JOIN(D,L) joins a cell array of strings L by inserting string D in % between each element of L. Meant to work roughly like the % PERL join function (but without any fancy regular expression % support). L may be any recursive combination of a list ...
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MATLAB
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function [params, gamma] = gamma_179(params, state) % 179-rule DSS gamma function % [params, gamma] = gamma_179(params, state) % params Gamma function parameters % state DSS algorithm state % gamma Result gamma coefficient % Copyright (C) 2004, 2005 DSS MATLAB package team (dss@cis.hut.fi). % Distri...
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MATLAB
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function [xVertices, yVertices] = ml_nlx_user_select_arena_roi( posX, posY, titleStr ) PLOT_CONVEX_HULL = true; K = 10; fprintf('ROI reference points will be asked for. Hit enter after points are selected.\n'); h = figure; plot(posX, posY, 'b.') hold on if PLOT_CONVEX_HULL % If not enough points are g...
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MATLAB
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function h=vl_plotpoint(V,varargin) % VL_PLOTPOINT Plot 2 or 3 dimensional points % VL_PLOTPOINT(V) plots the 2 or 3 dimensional points V. V is a 2xK or % 3xK array, with one point per column. % % H=VL_PLOTPOINT(...) returns the handle H of the plot. % % VL_PLOTPOINT() is a simple wrapper around the PLOT() and...
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MATLAB
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% Reads, sets or clears specified bits in a filter mask structure % % Implemented through SONFControl.dll % % [VAL FILTERMASK]=SONFCONTROL(FILTERMASK, LAYER, ITEM, ACTION) % % INPUTS: FILTERMASK, filter mask structure % LAYER, the layer to change (0 to 3) or 'ALL' for all layers % ITEM, the ...
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MATLAB
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function nodes = delnode(nodes,num) % nodes = delnode(nodes,num) % % Function to delete a single node (branch point of blood vessels). Nodes % are arranged as a structure array with fields: % % node.num - identifying number % node.root - root node, if it exists (0 is no root) % node.conn - connecti...
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MATLAB
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function l = length(tree,r) % XMLTREE/LENGTH Length Method % FORMAT l = length(tree,r) % % tree - XMLTree object % r - 'real' if present, returns the real number of nodes in the % tree (deleted nodes aren't populated) % l - length of the XML tree (number of nodes) %_______________________________________...
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MATLAB
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% mglRenderingDemo: go through several interactive rendering demos. % % usage: mglRenderingDemo(testNames) % by: Benjamin Heasly % date: 03/10/2022 % copyright: (c) 2006 Justin Gardner, Jonas Larsson (GPL see mgl/COPYING) % purpose: Run all the mgl test scripts in the mglRenderingTests folder. % ...
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MATLAB
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% mglDisplayCursor.m % % $Id$ % usage: mglDisplayCursor() % by: Justin Gardner % date: 02/10/07 % copyright: (c) 2007 Justin Gardner, Jonas Larsson (GPL see mgl/COPYING) % purpose: display/hide cursor, note that the cursor will be hidden/unhidden only % when the focus is on the...
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MATLAB
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function [ text ] = getBatteryInformation( obj ) % Display information about battery. % % Syntax: % GETBATTERYINFORMATION( obj ); % % Input parameters: % * obj - object containg data % % Example: % GETBATTERYINFORMATION( ); % % Available at: https://github.com/NCN-Lab/DBScope % For referencing, please use: Andre...
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MATLAB
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function [trialFolders] = ml_cai_io_trialfolders_find(experimentFolder) % Check if the experiment folder exists (it may not due to user error) if ~isfolder( experimentFolder ) error("The folder (%s) does not exist so we can not find any trial folders inside of it.", experimentFolder); end d = dir( sprintf('%s/H*'...
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MATLAB
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% slepianWinFilter.m % % Implements low pass filtering by convolving input with 0th order Slepian % window with user specified half bandwidth (in Hz) and sample rate % (in Hz) % % Based off of py.filter_tools.lpf_linear_filter in a2lib from S. Holtz, % but corrected so input amplitude isn't changed by filtering % ...
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MATLAB
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function [s,ds1,ds2,ds3] = spm_sample_priors(b,x1,x2,x3,bg) % Sample prior probability maps % FORMAT [s,ds1,ds2,ds3] = spm_sample_priors(b,x1,x2,x3,bg) % b - a cell array containing the tissue probability % data (see spm_load_priors) % x1,x2,x3 - coordinates to sample % bg - backgrou...
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MATLAB
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% mglTestMetalRepeatingDots: an automated and/or interactive test for rendering. % % usage: mglTestMetalRepeatingDots(isInteractive) % by: Benjamin Heasly % date: 03/17/2022 % copyright: (c) 2006 Justin Gardner, Jonas Larsson (GPL see mgl/COPYING) % purpose: Test random dots, repeated by the Meta...
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MATLAB
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% % Plot one Zipf plot. % % PARAMETERS % p (e*1) Node indexes % q (e*1) Multiplicities; [] to denote all ones % letter % function zipf_one(p, q, letter) font_size = 24; marker_size = 13; point_style = '.'; colors = konect_colors_letter(); if length(q) == 0 q = 1; end degrees = full(sparse(p, 1, q, max(p),...
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MATLAB
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function [ status, text, obj ] = open_mat_files( obj ) % Select workspace to open. % % Syntax: % OPEN_MAT_FILES( obj ); % % Input parameters: % * obj - object containg data % % Output parameters: % status % text % % Example: % OPEN_MAT_FILES( multiple_files ); % % Available at: https://github.com/NCN-Lab/DB...
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MATLAB
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function SaveNII(var, fname, example, bgvalue) % savenii(var, fname, example) % % Saves variable "var", sized [x, y, z, m], as a NiFTi file. % NiFTi filename "fname" must be provided by the user. A NiFTi % template must be given as well "example". Typically, this is % the original diffusion-weigthed data to ensure all ...
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MATLAB
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function plot_cellreg_placemaps(obj, session) outputFolder = fullfile(session.getAnalysisDirectory(), obj.Config.cellreg_placemaps_plot.outputFolder); if ~exist(outputFolder, 'dir') mkdir(outputFolder); end numRegCells = session.getNumCells(); fprintf('There are %d registered cells.\n', nu...
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MATLAB
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classdef GrayscaleImage < types.core.Image & types.untyped.DatasetClass % GRAYSCALEIMAGE A grayscale image. methods function obj = GrayscaleImage(varargin) % GRAYSCALEIMAGE Constructor for GrayscaleImage obj = obj@types.core.Image(varargin{:}); p = inputParser; p...
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MATLAB
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function [innermost, inside] = find_innermost_boundary(bnd) % FIND_INNERMOST_BOUNDARY locates innermost compartment of a BEM model % by looking at the containment of the triangular meshes describing % the surface boundaries % % [innermost] = find_innermost_boundary(bnd) % % with the boundaries described by a struct a...
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MATLAB
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% discrete gradient using central difference % Gx = cdiv(x, voxel_size) % % output % Gx - the gradient (4D matrix with Gx, Gy, Gz) % % input % x - the scalar field % voxel_size - the size of the voxel % % corresponding inverse/transpose operation is cdiv (divengence) % % Created by Ludovic de Rochef...
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MATLAB
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% sankey demo5 % ----------------------- % @author : slandarer % 公众号 : slandarer随笔 % 知乎 : slandarer figure('Name','sankey demo1','Units','normalized','Position',[.05,.2,.5,.56]) links={'a1','A',1.2;'a2','A',1;'a1','B',.6;'a3','A',1; 'a3','C',0.5; 'b1','B',.4; 'b2','B',1;'b3','B',1; 'c1','C',1; 'c2',...
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MATLAB
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% % Compute the row and column means. The halves are saved, to streamline % normalization. % % PARAMETERS % $network Network name % $type String % full On the full dataset % split On the source set of the split % training One the training set of the split % % INPUT % dat/data.$network.mat (only FULL) % dat...
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MATLAB
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function [params, s_new] = denoise_tanh(params, s, state) % Tanh DSS denoising function % [params, s_new] = denoise_tanh(params, s, state) % params Function specific modifiable parameters % state DSS algorithm state % s Source signal estimate, matrix of row vector signals % s_new Denoised s...
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MATLAB
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% calculate the mean and variance of arbitery windows using integral image computation function locSum = calcLocSum(I, gridx, gridy, patchSize) % if isdouble(I), Ip = I; else Ip = double(I); end Ip = double(I); [imh, ~, imc] = size(Ip); % coordinates of center pixels for computing regional sum in integral image(ca...
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MATLAB
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function hdr = encode_qform0(M,hdr) % Encode an affine transform into qform % _______________________________________________________________________ % Copyright (C) 2008 Wellcome Trust Centre for Neuroimaging % % $Id: encode_qform0.m 8776 2013-11-14 09:04:48Z roboos $ % Convert from first voxel at [1,1,1] to first ...
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MATLAB
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function ret=SONWriteMarkBlock(fh, chan, buffer, count) % SONWRITEMARKBLOCK writes data to a marker channel % % Implemented through SONWriteMarkBlock.dll % % RET=SONWRITEMARKBLOCK(FH, CHAN, TIMESTAMPS, MARKERS, COUNT) % INPUTS: FH the SON file handle % CHAN the target channel % TIMESTAMPS a vector of i...
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MATLAB
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close all clear all clc frameRate_hz = 15; % Select a video %limelightFilename = fullfile('C:\Users\fym313\Documents\help_borna_limelight', 'CX3 2523.llii'); %limelightFilename = fullfile('C:\Users\fym313\Documents\help_borna_limelight', 'CX3 2523 Dark.llii'); %limelightFilename = uigetfile(); msg = 'Select the folde...
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MATLAB
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function fileList = getAllFiles(dirName, fileExtension, appendFullPath) dirData = dir([dirName '/' fileExtension]); %# Get the data for the current directory dirWithSubFolders = dir(dirName); dirIndex = [dirWithSubFolders.isdir]; %# Find the index for directories fileList = {dirData.name}'; %'# Get a l...
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MATLAB
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function [colourHist blobSizes] = BlobStructColourHist(blobIndIm, colourIm, cBin) % function [colourHist blobSizes] = BlobStructColourHist(blobIndIm, colourIm, cBin) % % Creates colour histograms for the segments in blobIndIm % % blobIndIm: Image with indexes denoting the segments 1...N % colourIm: ...
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MATLAB
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function [sc,of,units,points,preTrig]=SONGetADCInfo(fh, chan) % SONGETADCINFO Returns information about an ADC data channel % (scale{,offset{,units{,points{,preTrig}}}})=SONGetADCInfo(fh, chan) % Inputs FH SON file handle % CHAN Channel number 0 to SONMaxChan()-1 % ...
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MATLAB
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function [params, gamma] = gamma_predictive(params, state) % Predictive controller learning rate modification rule % for deflation DSS % [params, gamma] = gamma_predictive(params, state) % params Gamma function parameters % state DSS algorithm state % gamma Result gamma coefficient % Copyright (C) 2...
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MATLAB
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function deleteFilters( obj, indx ) % Delete previously applied filters % %Syntax: % DELETEFILTER( obj, filt_list ); % % Input parameters: % * obj - object containg data % * indx - indices of filters to be deleted % % Example: % DELETEFILTER( indx ); % % Available at: https://github.com/NCN-Lab/DBScope % For ...
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MATLAB
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% mglTestMetalRepeatingQuads: an automated and/or interactive test for rendering. % % usage: mglTestMetalRepeatingQuads(isInteractive) % by: Benjamin Heasly % date: 03/10/2022 % copyright: (c) 2006 Justin Gardner, Jonas Larsson (GPL see mgl/COPYING) % purpose: Test random quads, repeated by the M...
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MATLAB
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function [x, y] = RectCenter(r) % [x,y] = RectCenter(rect); % % RectCenter returns the integer x,y point closest to the center of a rect. % % See also PsychRects, CenterRectOnPoint. % 9/13/99 Allen Ingling wrote it. % 10/6/99 dgp Fixed bug. % 5/18/08 mk Vectorized. % 5/30/09 mk Bugfix in vectorization. if nar...
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MATLAB
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clear file=dir('ACC*uncertain*.mat'); k=1; for jj=1:length(file) load(file(jj).name) n=length(outcome); n1=fix(n*0.67); early_g=[find(outcome(1:n1,1)==1);find(outcome(1:n1,1)==2);find(outcome(1:n1,1)==5)];%early phase late_g=[find(outcome(n1+1:n,1)==1);find(outcome(n1+1:n,1)==2);find(outcome...
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MATLAB
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function [ax] = plotSpikeSample(data,msecs,category) %plotSpikeSample.m 8/31/22 tickdir = 'out'; dobox = 'off'; dogrid = false; xUB = max(msecs); xUBR = round(xUB,-2); xt = [0:50:xUBR]; clrsMap = containers.Map(); clrsMap('orig') = [1 1 1]*0.6; clrsMap('fit') = [0.3961 0.1098 0.0863]; clrsMap('res') = [0.0039 0.12...
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MATLAB
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function[ChanList]=SONChanList(fid) % SONCHANLIST returns a structure with details of active channels in a SON file % % LIST=SONCHANLIST(FID) % % FID is the file handle. % List is a structure with field for the channel number, kind, title, % comment and the number of physical port data were collected from % ...
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MATLAB
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% % Compute a network decomposition on the full network. % % PARAMETERS % $network % $decomposition % % INPUT % dat/data.$network.mat % dat/info.$network % dat/meansi.$network.mat % % OUTPUT % dat/decomposition{,_map}.$decomposition.$network.mat % .D Eigenvalues / Singular value / Middle matrix % .U Eigenvectors o...
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MATLAB
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% init global variables for EEG-fMRI connectomes % set serialized_path to cloned repo from https://github.com/jwirsich/eeg-fmri-tle/data % % 2022-08-22 Jonathan Wirsich function [confs, confs_label, groups, eeg_conn_types, bands, atlases, serialized_path] = init_serialized_conf_tle() co = 0; co = co +1; co...
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MATLAB
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function fun = InvProbV2(x,Imat_t,dsr_t,ni,nh,no,tn,delta,data) wh = reshape(x(1:ni*nh),[ni,nh]); wo = reshape(x(ni*nh+1:ni*nh+nh*no),[nh,no]); bh = (x(ni*nh+nh*no+1:ni*nh+nh*no+nh))'; bo = (x(ni*nh+nh*no+nh+1:ni*nh+nh*no+nh+no))'; y_r = reshape(x(ni*nh+nh*no+nh+no+1:ni*nh+nh*no+nh+no+no*tn),[tn,no]); a = x(n...
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MATLAB
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function [out] = meanangle(in,dim,sens) % MEANANGLE will calculate the mean of a set of angles (in degrees) based % on polar considerations. % % Usage: [out] = meanangle(in,dim) % % in is a vector or matrix of angles (in degrees) % out is the mean of these angles along the dimension dim % % If dim is not specified, th...
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MATLAB
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%function for getting IR zones for anophles vidoes function [Params] = getzones3(Params) Zones = {}; for foldNumber = 1:length(Params.FilePath) [Z1,Z2,frame] = gZone2(Params,foldNumber); %show zone vertices zFrame = insertShape(frame,'FilledCircle',[Z1 ones(length(Z1),1)*10],'Co...
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MATLAB
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function hdr = encode_qform0(M,hdr) % Encode an affine transform into qform % _______________________________________________________________________ % Copyright (C) 2008 Wellcome Trust Centre for Neuroimaging % % $Id: privateencode_qform0.m 8776 2013-11-14 09:04:48Z roboos $ % Convert from first voxel at [1,1,1] to...
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MATLAB
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function hsl=rgb2hsl(rgb_in) %Converts Red-Green-Blue Color value to Hue-Saturation-Luminance Color value % %Usage % HSL = rgb2hsl(RGB) % % converts RGB, a M [x N] x 3 color matrix with values between 0 and 1 % into HSL, a M [x N] X 3 color matrix with values between 0 and 1 % %See also hsl2rgb, rgb2hsv, hsv2...
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MATLAB
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function [ciu,valu,mult,indx] = fcn_unique_partitions(ci,val) %FCN_UNIQUE_PARTITIONS returns unique partitions % % [ciu,valu,mult,indx] = fcn_unique_partitions(ci,val) takes a set of % partitions ci and associated scalar values val and identifies only the % unique partitions, ciu, the max val for each ciu, a...
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MATLAB
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% SONLASTTIME returns information about the last entry on a channel % before a specified time % % Implemented through SONLastTime.dll % %[time, data, markers, markerflag]=... % SONGETADCDATA(fh, chan, eTime, sTime{, FilterMask}) % % INPUTS: FH SON File Handle % CHAN Channel nu...