sha256 stringlengths 64 64 | language stringclasses 28
values | size int32 1 491k | lines int32 1 23.2k | content stringlengths 1 200k |
|---|---|---|---|---|
1cfb9238c356586b34bc4cda5c630e10afee7961fa50f2af03bbc1797ca4cf7c | MATLAB | 3,205 | 70 | function [matCounts,matValMeans,matValSDs,cellVals,cellIDs] = makeBins2(vecValsX,vecValsY,vecValsZ,vecEdgesX,vecEdgesY)
%makeBins2 Builds 2D binned matrix of vector Z by edges in vectors X and Y
% syntax: [matCounts,matValMeans,matValSDs,cellVals,cellIDs] = ...
% makeBins2(vecValsX,vecValsY,vecValsZ,vecEdgesX,v... |
73e8bad4694e574e3d230d4e1ab107be9586fba2a58daf118a2b883bfeb5060b | MATLAB | 3,211 | 114 |
function zef_nse_plot_epoched(zef, nse_field, plot_vec, y_label, plot_vec_ref)
h_axes = zef.h_axes1;
axes(h_axes);
perform_shift = true;
if nargin < 5
plot_vec_ref = [];
elseif isempty(plot_vec_ref)
perform_shift = false;
end
plot_colors = {'c', 'c'};
plot_quantiles = [ 0.0 0.5 1];
plot_linestyle = {'--','-'... |
f597d7ea28507922fc720470d5cd7d73c2f76239ac8d68c39a827a6dce0e32e4 | MATLAB | 3,211 | 69 |
%--------------------------------------------------------------------------------
% compute_baseline_excitability.m
%
% This analysis is included in
% Experimental validation of the free-energy principle with in vitro neural networks
% Takuya Isomura, Kiyoshi Kotani, Yasuhiko Jimbo, Karl Friston
%
% Copyright (C) 2022... |
eb32211232fdf8a7ea27040a0c80ea9d02317632d48ced188d770d6a905d8329 | MATLAB | 3,213 | 88 | ROI_radius = 10; %radius of the spherical region of interest, initial 2 cm diameter
load('AuditorySlowEP.mat')
measurements = measurements(1:1);
measurements{1} = empty;
activity = nan(size(positions,1),zef.number_of_frames,length(measurements));
K = size(positions,1);
%for q_value = logspace(-3,-13,11)
for k = 1... |
6e89d24512529afaffa5c175624f0361ad0801c098dd44b8d571cde7615dbcf3 | MATLAB | 3,214 | 95 | function [xpeak,peaks,peak2sample] = cluster_get_gfppeaks(obj,nsample)
% Extract GFP peaks of the data.
%
% Useage:
% Inputs:
% - x: M/EEG data. TxP, where T is the number of time points and P is the
% number of channels.
% Outputs:
% - xpk: Maps at peaks. NxP, where N is the number of peak maps.
%... |
2435961d0796834b8e689461acca4893fd951b61c91636f9176cfc7fe9d3e50a | MATLAB | 3,215 | 102 | %% jansen_rit_445.m
% Implements system (4.45) from Cook et al. (2022) / arXiv:2103.10554:
%
% Vp'' = A*a*f(Vpe - Vpi) - 2*a*Vp' - a^2*Vp
% Vpe'' = A*a*(cp_e*f(nu_e_p*Vp) + qp_e(t)) - 2*a*Vpe' - a^2*Vpe
% Vpi'' = B*b*(cp_i*f(nu_i_p*Vp)) - 2*b*Vpi' - b^2*Vpi
%
% State choice: x = ... |
b081e5515a8c626fd59422039da4e7d8c78b4272b29783b972133e035b977139 | MATLAB | 3,215 | 107 | function zeffiro_downloader( kwargs )
%
% zeffiro_downloader ( kwargs )
%
% This function downloads Zeffiro Interface in a given folder and sets it
% to be a local repository of the remote origin at
%
% https://github.com/sampsapursiainen/zeffiro_interface
%
% After downloading, the local repository will be updated i... |
9f31641d0008300b16aaa0d071882349222c890333bd8a8b6f8c92051405c973 | MATLAB | 3,225 | 98 | function bsliang_rawplot_conds(IDraw_G,subj_ind)
% subj_ind: Ñ¡Ôñ±»ÊԵıàºÅ
% ¸ù¾ÝÌõ¼þ»³örawÇúÏßµÄͼ£¨¾ùÖµºÍ±ê×¼Î󣩣¬Ö±¹Û½øÐбȽϣ¬Í¬Ê±Ò²ÊÇΪÁËÑé֤ģÐÍÄâºÏµÄ½á¹û
% IDraw_G
% step(5)*block(4)*turn(3)*subjs
% turn£º
% stimSITE NUMBER
% Left iTBS 1
% Left cTBS 2
% Right iTBS 3
% Right cT... |
b771aec5fa7f0c1837daf72c96e3b75993d199dcd1527c8879f02e8c8220e16a | MATLAB | 3,229 | 138 | function [Model] = estimate_shape_update(...
data, parm, Model)
% training shape parameter
%
% data.y = observed spike data with noise
% data.t = sample time [sec]
% data.fs = sampling rate for observed data [Hz]
%
% parm.fs = 100;
% sampling rate for observed data [Hz]
% parm.fs_est = 10... |
ea8180c622cf750bc5402d4d9653e835b0ab2bf24a1d047fac27501a23f65a71 | MATLAB | 3,236 | 68 | %Copyright © 2018- Joonas Lahtinen, Sampsa Pursiainen & ZI Development Team
%See: https://github.com/sampsapursiainen/zeffiro_interface
%Script for plotting dipoles that SESAME estimates.
if size(zef.SESAME_time_serie,2) == 1
d_est = zef.SESAME_time_serie{1}.estimated_dipoles;
zef.inv_rec_source = repmat(zef.... |
929bc4f9f6988368d623021c6e0c5911cdcda40a7084cda611f6573173e553c7 | MATLAB | 3,238 | 73 | function [Stop] = plot_optimization_model(plot_axis, results, state)
Stop = false; % for compatibility reasons
switch state
case 'initial'
cla(plot_axis);
plot_axis.Color=[0.94 0.94 0.94];
plot_axis.XTickMode='auto';
plot_axis.YTickMode='auto';
plot_axis.ZTickMode='auto';
... |
175a572d937afd69580db8f9a4e89589da3aeed73daea1c5aabe798a24820d43 | MATLAB | 3,242 | 115 | function [X,options] = simmar(data,T,Tnew,options)
%
% Simulate data from one single MAR state, which parameters will be
% estimated from the data
%
% INPUTS:
%
% data observations, a matrix containing the time series
% T Number of time points for each time series
% Tnew ... |
976df7a60a701cff72ccdf7cd4b9569468fdf27009284666a2298d2aa552c958 | MATLAB | 3,245 | 145 | function [] = func_double_arm()
rng('shuffle')
time_today = datestr(now, 'mmddyyyy');
dt=0.01;
input_infor={'xy', 'qdt'};
% in-out dimension
dim_in=length(input_infor) * 4;
dim_out=2;
% double robot arm properties
m1=1;m2=1;
l1=0.5;l2=0.5;
lc1=0.25;lc2=0.25;
I1=0.03;I2=0.03;
properties=[m1, m2, l1, l2, lc1, lc2, I... |
cdaae2589761804b3ea20325a6083d555a0d9493827a1fe06d0d84eee7e00231 | MATLAB | 3,245 | 110 | function vec = zef_ES_table(data_aux)
%% Pre-allocate table and properties
var_names = {...
'Residual', ...
'Maximum current', ...
'Sparsity (2-norm/1-norm) ratio',...
'Focused current density', ...
'Nuisance current density', ...
'Angle error', ...
'Relative... |
5eb5124ac2db903394d06cb3bbb584ea0783bf58695ef436fc0d4e18e7e0c5c3 | MATLAB | 3,247 | 89 | function [optN, C, N] = sshist(x,N)
% [optN, C, N] = sshist(x,N)
%
% Function `sshist' returns the optimal number of bins in a histogram
% used for density estimation.
% Optimization principle is to minimize expected L2 loss function between
% the histogram and an unknown underlying density function.
% An assump... |
2fa5bd8f96b0199ee7a1b498cc351085bb771a17511cab4b6a605810c8e8cdc8 | MATLAB | 3,251 | 65 | function [] = convert_h5_voxel_based_structural_connectivity_to_mat(subject,dataset,h5_file_ID)
% The purpose of this script is to look into the sub-*_edge_weights_n*.h5
% files generated for each subject (i.e., the voxel-based structural
% connectivity matrices) and generate the .mat files corresponding to the
% varia... |
94474a2df35ad83a9d0932dd7e0f2bf0a66c0608dddc4fee29c6c2ab0ed69af4 | MATLAB | 3,252 | 72 |
%--------------------------------------------------------------------------------
% adder_init.m
%
% This demo is included in
% Triple equivalence for the emergence of biological intelligence
% Takuya Isomura
%
% The MATLAB scripts are available at
% https://github.com/takuyaisomura/reverse_engineering
%
% Copyright (... |
c951ec391135d50040f949e5d4258fb9a2398b77ecf65222b602f14865cb95b8 | MATLAB | 3,255 | 90 | function gamma = mymcs_gamma_yao2001 ( headmodel, order )
% Returns the Gamma series expansion for EEG leadfields.
%
% Use as:
% Gamma = mymcs_gamma ( headmodel, order );
%
% where:
% headmodel FieldTrip concentric spheres definition:
% headmodel.r Radius of the spheres.
% headmodel.cond Conduct... |
a3af1045685795f784037153a216a89a755c2eef8cfcd7e7fdb8f948a8b06d89 | MATLAB | 3,259 | 88 | function bsliang_saveDDMform(TDATA,group_indx,save_path)
% ¶ÁÈ¡ºÍת»»Êý¾Ýµ½´¦ÀíÊý¾ÝµÄ¸ñʽ
% ================================
% DATA structure:
% turn£º
% stimSITE NUMBER
% Left iTBS 1
% Left cTBS 2
% Right iTBS 3
% Right cTBS 4
% Sham ... |
a1cf825a2fce3a03704f6b49147b667fba807f333f59d161173e89fa6c790854 | MATLAB | 3,262 | 118 | function [handle,matX_final,matY_final,matZ_final,matC] = plotTube3D(vecX,vecY,vecZ,vecR,vecC,intPointsPerRadius,boolConnectEnds)
%plotTube3D Plots 3D tube with specified color-range and width
%Syntax: handle = plotTube3D(vecX,vecY,vecZ,vecR,vecC,intPointsPerRadius)
%plot 3D tube
%{
vecX = [-1 -0.8 -0.3 -0.1 0.0... |
706b8cf8208172a9dbeae52426eef115c75ad717d4d8b2956efe248d7d6873e6 | MATLAB | 3,263 | 67 | % The purpose of this script is to concatenate the thresholded 1000x1
% structure-function coupling .mat files into one file, for each subject
% Requirements:
% 1. The script extract_voxel_based_structure_function_coupling.m has been run.
%
% Output:
% One .mat file per subject containing the subject's voxel-based st... |
50216852808e39d783df8b90542fd98d23e8107bca56d98d2d7b5ffd6f247a1e | MATLAB | 3,267 | 70 | function [inmat_s_rm_sp_rlr,inmat_s_rm]=bsliang_tmssham_lr_out(TDATA,inmat,LR_ind,outTag,is_rmsd)
% is_rmsd: ÊÇ·ñÈ¥³ý3SD
% ±ê×¼»¯£¨¡÷TMS=(rTMS-Sham)/Sham£©£¬·Ö×óÓÒÄÔ£¬Êä³öSPSS¸ñʽ
% inmat£º block(4)*turn(3)*subj(197)
% LR_ind£º×óÓÒÄÔindex
% outTag£ºÊä³öÓÃÓÚSPSS·ÖÎöµÄmatÎļþÃû
% Êä³ö£ºinmat_s_rm_sp_rlr... |
79263b5b5c045b3ad7bd4e11b04524a43137dc3417fed3a3523c266ea65de4f1 | MATLAB | 3,272 | 111 | %% Copyright © 2025- Joonas Lahtinen
classdef CSMInverter < inverse.CommonInverseParameters & handle
%
% CSMInverter
%
% A class which defines the properties needed by the Classical Sparse inversion methods (CSM),
% and the method itself.
% The inverter consist four inversion methods:
% - d... |
68a2dabd765bfc65b45ce7b02b5198b93cf771abcf039d0f13be823ee835a325 | MATLAB | 3,278 | 95 | function [matW, dblMSE, intRankT, sSuppOut] = doRdRankReg(matX, matY, intRank)
%doRdRankReg Performed reduced rank multivariate regression.
% [matW, dblMSE, intRankT, sSuppOut] = doRdRankReg(matX, matY, intRank)
% Finds the reduced rank regression using a full rank assumption. X
% is a n-by-r matrix, and Y is... |
6d1290ea53b43935762cc378770ef72dd691b5783f656cb26d7a1747ea9ad03d | MATLAB | 3,283 | 74 | function [performance] = calculate_performance(log_likelihood_by_frame, node, true_labels, data_index)
% prune ll
log_likelihood = log_likelihood_by_frame(node, data_index);
% prune labels
true_labels = true_labels(data_index);
[fpr, tpr, threshold, AUC, operating_point] = perfcurve(true_labels,log_likelihood,1);
[tr... |
b6d48b5e20bcd214c4a73cdab219b9c5a0ed7cf43e710435dfc9def6fa237a94 | MATLAB | 3,296 | 97 | clc
clear
close all
% Defines the paramaters for the simulation.
order = 100;
nrep = 1e6;
% Generates the standard head model.
headmodel = [];
headmodel.type = 'concentricspheres';
headmodel.o = [ 0.0000 0.0000 0.0000 ];
headmodel.r = [ 0.8700 0.9200 1.0000 ];
headmodel.cond = [ 1.0... |
a84805c2834c50acc13cbaaee7fff78450d2f5832d361986a71b1eab9f0e4f17 | MATLAB | 3,297 | 89 | zef.show_contour = zef.h_show_contour.Value;
zef.show_contour_text = zef.h_show_contour_text.Value;
zef.contour_set_text = zef.h_contour_set_text.Value;
zef.contour_set = str2num(zef.contour_set_text);
zef.attach_electrodes = zef.h_checkbox14.Value;
zef.axes_visible = zef.h_checkbox15.Value;
zef.azimuth = zef.h_edit80.... |
3716183152c203705cf72d8976a7431a145f6a58c4b8dded7756b4ecb02bf9c9 | MATLAB | 3,306 | 114 | function [UI,Q] = admUI(Psy, Psz)
%#codegen
% This the simplest version of the admUI algorithm with a very basic stopping criteria
% that works well in practice. This file is used to generate the MEX for the tests in Fig. 2.
% In contrast, the function admUIg supports a more rigorous set of stopping criterias for... |
240ad910f0207662d379c03285041b3b9d309935d9369383e46b0bce79db0fee | MATLAB | 3,307 | 140 | function plt = networks_plot(nets,layout,varargin)
if nargin<2
layout = [] ;
end
% ensure plotting functions are on path
mspath = microstate.functions.toolbox_path ;
% Decide layout for plot
m = 1 ; n = 1 ;
k = numel(nets) ;
while m*n < k
n=n+1 ;
if m*n < k
m=m+1 ;
end
end
% Check for ba... |
d6b42c5ba9fd74c69a4098fabdec3fb8ef1bbfcf0e971388da90552eca86a1c2 | MATLAB | 3,310 | 91 | function [dblStartHiDefT,dblUserStartT,dblFinalStartHiDefT,dblUserFinalT] = askUserForSyncTimes(vecPupilSyncLum,vecPupilTime,intBlock)
%askUserForSyncTimes Request user input to synchronize on/offsets
% [dblStartHiDefT,dblUserStartT,dblFinalStartHiDefT,dblUserFinalT] = askUserForSyncTimes(vecPupilSyncLum,vecPupilTi... |
6dfb68506b51bb1332ca3f12d5214e6b476c4e41c8fb9105a36fd0802203c502 | MATLAB | 3,313 | 120 | function [post_info, spike_info, ypred] = ...
evaluate_performance( ...
data, Model, parm, post_sw)
% evaluate_performance
%
% [post_info, spike_info, ypred] = ...
% evaluate_performance(data, Model, parm)
%
% post_info.spike_num(n) = estimated spike number
% of n-th overlap... |
8260778ff274e07461dcc4337b959b8f45909cf10670fb343cf63cdc5f206389 | MATLAB | 3,317 | 85 | function obj = simulate_seq_markov(obj,varargin)
% Simulate a Markov chain microstate sequence
% check inputs
options = microstate.functions.make_options(varargin) ;
% default options
defaults = {'Nsample',[] ;
'PriorProb',[]} ;
options = microstate.functions.add_opti... |
a2b6b78dd3f86538551ec8c1d7d066294e10c23bd511a5aa03cbd3ce6cd2c56c | MATLAB | 3,320 | 97 | function vecDistance = strdist(s1,s2,varargin)
%strdist Finds the Edit Distance between strings s1 and s2. The Edit Distance
% is defined as the minimum number of single-character edit operations
% (deletions, insertions, and/or replacements) that would convert
% s1 into s2 or vice-versa. Us... |
cf321a5f8c03bf5424ef6d39ef8ec1b516256ca689a152a71498cb3865cdaabc | MATLAB | 3,320 | 159 | function threshold_max = test_threshold(...
data, Model, spike_mode, plot_mode)
%
if nargin < 3, spike_mode = 2; end;
if nargin < 4, plot_mode = 0; end;
print_mode = 0;
% test_threshold
% ---- Extract spike window changing threshold
% Model
tau = Model.tau;
a = Model.a; % spike waveform amplitud... |
d5367402df2c6a5302e146760cf518ad5b467c8742b5a08a74505aebbf02599a | MATLAB | 3,330 | 55 | %Copyright © 2018- Joonas Lahtinen, Sampsa Pursiainen & ZI Development Team
%See: https://github.com/sampsapursiainen/zeffiro_interface
zef.SESAME_App = SESAME_App;
zef_init_SESAME;
%Substitute values from zef to the app
zef_fields = fields(zef);
for zef_i = 1:length(zef_fields)
if isprop(zef.SESAME_App,strcat('h_'... |
d5a88b8bed3c6489eec4bb2e11779c74731946b39704f8eb110b540634626646 | MATLAB | 3,333 | 82 | % function to load base and roi info from user selected complete.mat file
function S = loadComplete3( complete )
% complete is the full path to the file
% converts to single!
% does not completely load complete! see specific variables loaded below
% [file,path] = uigetfile('*complete.mat');
% if isequal(file,0... |
ca7514f8aa6539aae861c5f50298bce0b0067ad298658f3c8e6e56603ea6ec83 | MATLAB | 3,338 | 70 |
%reconstructionTool_start
zef.reconstructionTool.app = zef_reconstructionTool_app;
if ~isfield(zef.reconstructionTool, 'current')
zef.reconstructionTool.current=[];
end
%set initial values
if ~isfield(zef, 'reconstruction_information')
zef.reconstruction_information=[];
end
if ~isfield(zef.reconstructionT... |
a8c617ec2e391c7ccd0eec9d16ab7d61b18b2824bc27cb8307362f21c76f6c0d | MATLAB | 3,339 | 124 | function [post_info, spike_info, ypred] = ...
evaluate_performance_train( ...
data, Model, parm, post_sw)
% evaluate_performance
%
% [post_info, spike_info, ypred] = ...
% evaluate_performance(data, Model, parm)
%
% post_info.spike_num(n) = estimated spike number
% of n-th ov... |
cee345267474bdf08bf7883bf7f68d9fd62ecbd5d2eae3f36c92a35f58505c06 | MATLAB | 3,340 | 100 | function [ eightPairs, vprofs ] = ringCoordFromXY2( im, X0, Y0, r )
% returns 8 pairs of coordinates based on the
% Full Width Half delta (=max-min) of fluorescence peak
% roughly centered on the coordinates R0,C0
% : im is image
% : R0, C0 row and column coords from mouse click
% note that something is not ... |
5a22e1dbb0aa53573bf9dd5070419f375e44519f9e2fbea8351a9e88365967e5 | MATLAB | 3,343 | 83 | %% initialize
clear; clc;
currentPath = pwd;
cd ../temp
load('tempFileForAnalysis.mat');
cd(pathBIDS);
cd derivatives
pathDeriv = pwd;
cd(pathDeriv);
cd('spm-preproc'); % For saving preprocessed file from SPM
pathPrepFile = pwd;
prepSubjFolders = dir('sub*');
cd(pathDeriv);
cd('behavior');
pathBehav = pwd;
load('be... |
2bf0c029266ed953170e9e98361ffa81c80e12c967a04800ef985dd6e2bd67d5 | MATLAB | 3,346 | 81 | % lognormal fit to data
function [log_plot, gof_stats, coeff, logfit, xa, yaf] = logfitting(spinea, binsize, mulow, silow, muup, siup)
% fit all spines from all cells into lognormal fit
% start_analysis = min(spinea);
start_analysis = 0.001;
end_analysis = max(spinea); % the endpoint... |
67621123a490c4cb0ed3a4fa1860db642e7c93e94a2319e6e7f1991ae08d1f97 | MATLAB | 3,346 | 82 | function reading_permutations(varargin)
p = inputParser;
pathExists = @(x) exist(x,'dir');
positiveInteger = @(x) (mod(x,1)==0 & x >0 );
positiveFloatLessOne = @(x) (x>0 & x<1 & isfloat(x));
addRequired(p,'n_iterations', positiveInteger);
addRequired(p, 'alpha_val', positiveFloatLessOne);
... |
0011ce6bbd1dc5fda1e168192062bb1f78f8e8f283d5eb992ae921ed8e4c11f4 | MATLAB | 3,349 | 83 | function obj = stats_hurst(obj)
% Calculate Hurst exponent of microstate sequences
% Check inputs
if isempty(obj.label)
error('To calculation microstate coverage, property label is required')
end
%% Convert microstate sequence to random walk
% Assign states values of +1, -... |
a9fda604ae1caa1f12f003d3e1c540fcecdfe077291f5884d563aa9b66f00e26 | MATLAB | 3,364 | 108 | function s = structmerge(s,varargin)
% function s = structmerge(s,s1[,'skip|strict'][,'recursive'][,'type'][,'i'])
%---
% set or replace values in s from those in s1, where s and s1 are
% structures of the same size
% - if 'skip', or 'strict' flag is specified: does not add new field in
% structure s (generates error... |
5e3ae5f405429b3dc250e962587a4fdf8ae6f115c86e0781fa8d631facbd0538 | MATLAB | 3,371 | 78 | %% initialize
clear; clc;
currentPath = pwd;
cd ../temp
load('tempFileForAnalysis.mat');
cd(pathBIDS);
cd derivatives
pathDeriv = pwd;
cd(pathDeriv);
cd('spm-preproc'); % For saving preprocessed file from SPM
pathPrepFile = pwd;
prepSubjFolders = dir('sub*');
cd(pathDeriv);
cd('behavior');
pathBehav = pwd;
load('be... |
ed461974c2ac84fd28de37b53d083379e6ad1fdf2a9993ef7dd178cd92713e72 | MATLAB | 3,373 | 92 | function [vecPredY_CV,cellMeanCoeffs,matX,cellFunctions,cellFoldCoeffs,cellFoldTestObs] = gnmkfold(intFoldK,vecRepetitionIdx,matX,vecY,cellCoeffs0,varargin)
%gnmkfold Uses K-fold cross-validation on gnmfit()
%
%[vecPredY_CV,cellMeanCoeffs,matOutX,cellFunctions,cellFoldCoeffs,cellFoldTestObs] =
% gnmkfold(intFoldK,... |
c047f91dccb93f29e492a92dfb3a5b7c4edc8ba59f08cc579a8d7e0560dfbdd7 | MATLAB | 3,374 | 88 | function exp_struct = if2_load_exp_timing(slice_id)
%if2_load_exp_timing Load exp timing from the authoritative exp_timing spreadsheet.
%
% exp_struct = if2_load_exp_timing(slice_id)
%
% Reads the exp_timing sheet from indiegroups_db4.xlsx (via if2_paths),
% finds the row matching experiment_id == slice_id, and ... |
938b2feef74c6f5861c5e28fb30b2d469da7d3ff2b36c92d414cd61bb21676f2 | MATLAB | 3,376 | 78 | function [LWaveform,RWaveform] = ...
MakeGaussNoiseBand(fLow, fHigh, dur, Fsample, Chan, Rho, ITD, IPD, RandSeed,ContraChan)
% MAKEGAUSSNOISEBAND - generates gaussian bandpass noise
% inputs:
% fLow: lowest frequency in passband (in Hz)
% fHigh: highest frequency in passband (in Hz)
% dur: duration (in millise... |
7124fecba45d0ab9a06066b38a7309d890a41f4dea10684efb23f6260946b8a9 | MATLAB | 3,377 | 139 | function dblH = getEntropy( input )
%UNTITLED Summary of this function goes here
% Detailed explanation goes here
%Uniform distribution, range 1-10
uni1=randi(10,1,10000);
edges=1:10;
p_uni1=histc(uni1,edges);
p_uni1=p_uni1/sum(p_uni1);
subplot(2,2,1),bar(edges,p_uni1);
h_uni1=-sum(p_uni1.*log2(p_uni1));
title([... |
90e51ffab2dbc97cd3d0ab1dc2639b17710b2bafff6f6b5809588e30919b764b | MATLAB | 3,380 | 93 | function hess = getHessian(problem, x, d, storedb, key)
% Computes the Hessian of the cost function at x along d.
%
% function hess = getHessian(problem, x, d)
% function hess = getHessian(problem, x, d, storedb)
% function hess = getHessian(problem, x, d, storedb, key)
%
% Returns the Hessian at x along d of the cost ... |
9e1474cbd23b8f3d09d9ea0fc70dcb0f8b24b437cc273c345c463781df21e1c6 | MATLAB | 3,381 | 112 | function vecValues = getCircFit(vecOptimParams,matXY)
%getCircFit Returns values in the range 0-1 depending on x-y location
% within (1) or outside (0) fitted area defined by vecParams (x, y, r) for a circle or
% (x, y, r1, r2, a) for an ellipse
%Syntax: vecValues = getCircFit(vecParams,matXY)
if numel(vecOptimP... |
1fce68da1e6d17d5558b08349f72fa5d66139589ee0fc53b4b110c096e72e6e6 | MATLAB | 3,383 | 101 | function gamma = mymcs_gamma_naess_old ( headmodel, order )
% Returns the Gamma series expansion for EEG leadfields.
%
% Use as:
% Gamma = mymcs_gamma ( headmodel, order );
%
% where:
% headmodel FieldTrip concentric spheres definition:
% headmodel.r Radius of the spheres.
% headmodel.cond Condu... |
cb7f7cd4d45607d47fb314184b950290ae026cad83a969615ce7c79b153b15d9 | MATLAB | 3,393 | 98 | %Copyright © 2018- Sampsa Pursiainen & ZI Development Team
%See: https://github.com/sampsapursiainen/zeffiro_interface
if not(isfield(zef,'inv_multires_dec'));
zef.inv_multires_dec = [];
end;
if not(isfield(zef,'inv_multires_n_decompositions'));
zef.inv_multires_n_decompositions = [20];
end;
if not(isfield(zef,... |
506f51033dcd1dc031efa9b0ce59dc5f526790e67f2fb1dc775d66cd19785615 | MATLAB | 3,401 | 75 | function bsliang_permutation_anl()
addpath('E:\eeglab2021\functions\statistics') % getting fdr function from eeglab
% analysis for permutation
load ..\data\org_result
Morg=squeeze(M);
clear M
load ..\data\permutation
M=squeeze(M);
% indexs={'slp_nonorm','slp_norm','pse_norm','pse_nonorm'};
indexs={'slp_nonor... |
718952ec884f7bc43c2bcfa18eb5da962e2618f40edf8ebf0e6866d7c0e6738b | MATLAB | 3,412 | 88 | function [vecAlignedTime,vecRefinedT,vecError,sSyncStruct] = SC_syncSignals(vecReferenceT,vecNoisyHighResT,sUserVars)
%SC_syncSignals Synchronize signals
% [vecAlignedTime,vecRefinedT,vecError,sSyncStruct] = SC_syncSignals(vecReferenceT,vecNoisyHighResT,sUserVars)
%optional input: sUserVars
%optional output: sSyn... |
b35254959ec36aaa77b5f9f185e835984340459c9d610215d496e5aa369df66c | MATLAB | 3,425 | 82 | function [] = compute_voxel_based_hurst_exponent(subject,part)
% The purpose of this script is to compute the Hurst exponent of the Penn
% sample's diffusion voxel-based functional timeseries, using the nonfractal toolbox:
% https://github.com/wonsang/nonfractal as descrived in the paper:
% https://www.ncbi.nlm.nih.go... |
71ed38fd359b772b818c91f4a3ed59cbb856e9e1c1f43715854c558297ec4c49 | MATLAB | 3,426 | 108 | function fit = hmmspectratde(hmm,options)
% Get spectral estimates from a time-delay embedded model
%
% INPUT
%
% hmm An hmm-mar structure
%
% OUTPUT
% fit is a list with K elements, each of which contains:
% fit.state(k).psd (Nf x ndim x ndim) Power Spectral Density matrix
% fit.state(k).ipsd (Nf x... |
b805124db541d36f572e12994140ed44c65031ba98a09c662f971c2985ad8bef | MATLAB | 3,426 | 211 | function y = mls(n,flag)
%y = mls(n,{flag});
%
%Generates a Maximum Length Sequence of n bits by utilizing a
%linear feedback shift register with an XOR gate on the tap bits
%
%Function can accept bit lengths of between 2 and 24
%
%y is a vector of 1's & -1's that is (2^n)-1 in length.
%
%optional flag is:
%
% 1 f... |
7be1473d877226fec0aab1bd032f7eb0a601b6190b7e8086ab9206900cb59ffb | MATLAB | 3,428 | 66 | %Copyright © 2018- Sampsa Pursiainen & ZI Development Team
%See: https://github.com/sampsapursiainen/zeffiro_interface
tic;
if zef.source_direction_mode == 1
zef.lf_param.direction_mode = 'cartesian';
end
if zef.source_direction_mode == 2
zef.lf_param.direction_mode = 'normal';
end
if zef.source_direction_mode... |
199a2090687386f515cd5e4a2bf1c94474b0b2981220831356886428c0ed9223 | MATLAB | 3,435 | 97 | function zef_get_reconstruction_field(reconstruction, s_i_ind, intersect_ind);
reconstruction = reconstruction(:);
reconstruction = reshape(reconstruction,3,length(reconstruction)/3);
if ismember(type,[1 7])
reconstruction = sqrt(sum(reconstruction.^2))';
elseif type == 6
reconstruction = (1/sqrt(3))*sum(rec... |
a5444c6ce5b3e3a5c30e31d75c9a1e5594091834698a858b171fd6245f3e34ed | MATLAB | 3,440 | 77 | function [BOLD] = extract_voxel_based_BOLD_signal(subject,dataset,atlas_path)
% The purpose of this script is to extract the BOLD timeseries from each TR
% as designated by the prepare_functional_data.sh script, for each of the
% subject's cortical voxels.
% Requirements:
% 1. Download the gifti and cifti-matlab tool... |
b8b6456d459adf1d417e2611cb61f7e1e9914c1344294aabe0c50615afbf360f | MATLAB | 3,444 | 127 | function sLabels = ETP_GetImLabels(matAllIm)
%%
set(0,'units','pixels')
vecScreenRect = get(0,'screensize');
h=figure('Name','Image labeler','Position',round(vecScreenRect/2));
drawnow;
movegui(h,'center');
%global hAxis
hAxis = axes();
axis(hAxis,'equal');
drawnow;
set (h, 'WindowButtonMotionFcn', @(h,e) ... |
37240dc78e0431a7d538c390b071c12ee7a3766158719be942dbef75cbf157e6 | MATLAB | 3,452 | 42 | %Copyright © 2018- Sampsa Pursiainen & ZI Development Team
%See: https://github.com/sampsapursiainen/zeffiro_interface
zef_data= zeffiro_interface_filter_tool;
zef.fieldnames = fieldnames(zef_data);
for zef_i = 1:length(zef.fieldnames)
zef.(zef.fieldnames{zef_i}) = zef_data.(zef.fieldnames{zef_i});
end
set(zef.h_ze... |
adb476cb242a6ed29eb089a08ffd285cc7ba4bbd1a358c60e6f646bb0c479543 | MATLAB | 3,459 | 211 | function y = mls(n,flag,s)
%y = mls(n,{flag});
%
%Generates a Maximum Length Sequence of n bits by utilizing a
%linear feedback shift register with an XOR gate on the tap bits
%
%Function can accept bit lengths of between 2 and 24
%
%y is a vector of 1's & -1's that is (2^n)-1 in length.
%
%optional flag is:
%
% 1... |
1f96c05e600f234a4468d0508c6846069018974627d24547c018ef2f5b595685 | MATLAB | 3,470 | 52 | %Copyright © 2018- Sampsa Pursiainen & ZI Development Team
%See: https://github.com/sampsapursiainen/zeffiro_interface
function zef = zef_dpq_window(zef)
zef_data=zeffiro_interface_dynamical_plot_queue_app;
zef.fieldnames = fieldnames(zef_data);
for zef_i = 1:length(zef.fieldnames)
zef.(zef.fieldnames{zef_i}) = ze... |
a78895eaf03cf8dd874980f8e7e11740a323dc148c7991384c38e5d7a7763879 | MATLAB | 3,472 | 94 | function [H, basis] = hessianmatrix(problem, x, basis)
% Computes a matrix which represents the Hessian in some tangent basis.
%
% [H, basis] = hessianmatrix(problem, x)
% [H, basis] = hessianmatrix(problem, x, basis)
%
% problem is a Manopt problem structure with a manifold and cost function.
% x is a point on the man... |
a63bd7d896d7f6376823c8940bafa0c68c639de299a968ae927752e038e2d26c | MATLAB | 3,475 | 88 | % uses hardcoded solution to extracting frame timing
% this could fail if acq accessories change
function [ time, interval ] = bfTime( metadata )
% input is the original metadata from stack read!
% return an array containing the time values for each frame
% OLD - returns interval in seconds from olympus ETS/VSI files
... |
bcf823105fbe8875c462e2604390d60949d63bd154a6851e4cbc82c66084bb23 | MATLAB | 3,479 | 120 | function [Gamma,Xi,L] = fb_Gamma_inference(XX,K,hmm,residuals,slicepoints,constraint)
% inference using normal forward backward propagation
%p = hmm.train.lowrank; do_HMM_pca = (p > 0);
%
% if ~do_HMM_pca && (nargin<4 || isempty(residuals))
% ndim = size(data.X,2);
% if ~isfield(hmm.train,'Sind')
% ord... |
c2bf6b58eb1bafa2533e76039cbbd20832f408a33a5352dc50227bce24141d09 | MATLAB | 3,484 | 139 | function messages = copy_dependencies_to_folder ( file, target_folder, kwargs )
%
% utilities.copy_dependencies_to_folder ( file, target_folder, kwargs )
%
% Reads the dependencies that are not Matlab built-ins of the given file using
%
% matlab.codetools.requiredFilesAndProducts
%
% and tranfers them to a target fol... |
2c8b931f7c3d5f6b7a8b8367bcce4d609f105890df4b68ed75dbbf194f909272 | MATLAB | 3,488 | 115 | function gamma = mymcs_gamma_bruna ( headmodel, order )
% Returns the Gamma series expansion for EEG leadfields.
%
% Use as:
% Gamma = mymcs_gamma ( headmodel, order );
%
% where:
% headmodel FieldTrip concentric spheres definition:
% headmodel.r Radius of the spheres.
% headmodel.cond Conductiv... |
da4b8c3451ab4c853e7d0251b689c33b91415fb49d511cd35cc07c5659b5c30a | MATLAB | 3,495 | 110 | %Copyright © 2018- Sampsa Pursiainen & ZI Development Team
%See: https://github.com/sampsapursiainen/zeffiro_interface
function [I] = zef_tetra_in_compartment(reuna_p,reuna_t,nodes,varargin)
if evalin('base','exist(''zef'')')
if evalin('base','isfield(zef,''meshing_threshold'')')
meshing_threshold = evalin... |
fc2ee465f0cc42e378b78b6dcdc714b111bc0ee0a2c11f73b34a971cec15b7f4 | MATLAB | 3,495 | 130 | function [dat,opt ]= sw_get_env(dat,opt)
% [env ]= detect_get_env(dat,opt)
%--------------------------------------------------------------------------
% function to filter and calculate the envelope (~power) from signal
%
% inputs: 1) structure with fields
% dat.csc : continuoulsy sampled channel... |
0f7efce4a164a72bca28309b87b792e0787d5a4ab83d34157082b7340d314cce | MATLAB | 3,501 | 66 | function TDATA=bsliang_Trandata(DATA)
% ¶ÁÈ¡ºÍת»»Êý¾Ýµ½´¦ÀíÊý¾ÝµÄ¸ñʽ
% ================================
% DATA structure:
% turn£º
% stimSITE NUMBER
% Left iTBS 1
% Left cTBS 2
% Right iTBS 3
% Right cTBS 4
% Sham 5
%... |
a974c9313c4f3089c3f5ff9ecfe66e20311cbb89a551c344ac179d0db203e41d | MATLAB | 3,502 | 151 | function M = spheresymmetricfactory(n)
% Returns a manifold struct to optimize over unit-norm symmetric matrices.
%
% function M = spheresymmetricfactory(n)
%
% Manifold of n-by-n real symmetric matrices of unit Frobenius norm.
% The metric is such that the sphere is a Riemannian submanifold of the
% space of nxn symme... |
c6049bfa80ac13d5c727bf51aa6bd2faf3b26aae13512af7716d12679d2fbf6b | MATLAB | 3,502 | 131 | function [Y,Nsum] = moving_average(X,F,DIM)
%MOVING_AVERAGE Smooths a vector through the moving average method.
%
% Syntax:
% [Y,Nsum] = moving_average(X,F,DIM);
%
% Input:
% X - Vector or matrix of finite elements.
% F - Window semi-length. A positive scalar (default 0).
% DIM - If D... |
5323cb65b5b6613b8f34c46dd185197ff0404d47445c41c687f5ca2a758535cb | MATLAB | 3,505 | 109 | clear all
data_path = '/media/ravinderjit/Data_Drive/Data/BehaviorData/IACbehavior/';
%Fig_path = '../../../../Figures/DynBin/';
Fig_path = '/media/ravinderjit/Data_Drive/Data/Figures/DynBin/';
%OL_path = '../../../../../Apps/Overleaf/Binaural Bash 2019/Figures/';
addpath(data_path)
Subjects = [{'S211'}, {'S001'}, {'S... |
586307764ae21554bc6619cdee20c98c5c0c033632bba06f60f3caf27cefe6f6 | MATLAB | 3,509 | 132 | function submodule_structs = read_gitmodules ( gitmodules_file, kwargs )
%
% read_gitmodules ( gitmodules_file, fields )
%
% Reads the absolute and relative Git submodule paths from a given .gitmodules
% file. The outputs will of course be empty, if the given file was not a valid
% .gitmodules file.
%
% Inputs:
%
% - g... |
82707ef3e168286a34fbf8da91721ddd01e21a14cffa0b694106cb9eab5b8e11 | MATLAB | 3,510 | 63 | function d_EEG2CSV(EEGpath)
% function to convert ANT EEProbe files to (zipped) csv format
% uses an EEGlab plugin to read the files, so EEGlab must be installed and on the path
% input is the directory containing raw EEG files - it is critical that the entire path is given, the EEGlab functions do not understand ... |
0d24820e25e1ccde9cb3c59c1eee483af73f4669d59a7cdc7e543307a61cd966 | MATLAB | 3,520 | 82 | function [myelin_content] = average_myelin_data_schaefer_atlas(subject)
% The purpose of this script is to compute the average intracortical myelin
% content on a provided Human Connectome Project (HCP) subject using the
% Schaefer atlas-defined brain regions.
%
% Requirements:
% 1. The publicly available 100 unrelat... |
d0da00e6426d9610fa5c2ad6eb4a0832e1e87678a709fdf1bdc616d43e504771 | MATLAB | 3,520 | 83 | function plot_ICs(params,EEG)
etc = {EEG.etc};
if range([EEG.nbchan]) ~= 0 % Check that all recordings have the same number of channels
error('Different number of total channels in at least one recording')
end
nChans = length(EEG(1).urchanlocs);
nRec = length(EEG);
recmask = cellfun(@(x) isfield(x, 'clean_channel... |
0762c3c54d1beaf4d5c6f451f8fbce009c6017c464eba22eacc07d97ff2aab21 | MATLAB | 3,524 | 116 | function [vecR2_CV, sSuppOut,intOutputFlag] = doRidge_CV(matX, matY, intFoldK, dblLambda)
%doRidge_CV Performs CV ridge regression.
% [vecR2_CV, sSuppOut] = doRidge_CV(matX, matY, intFoldK, dblLambda)
% Make sure matrices are the same length
assert(size(matX,1)==size(matY,1), 'X and Y must have the same numbe... |
4dce5e49ddd2a0ca708f68dc1a87078ceda3017028d47b0507a6fae800a57050 | MATLAB | 3,533 | 122 | function L = obslikelogistic (X,hmm,residuals,XX,slicepoints)
%
% Evaluate likelihood of data given observation model, for one continuous trial
%
% INPUT
% X N by ndim data matrix
% hmm hmm data structure
% Y for now, Y is stored in last column of XX.
% XX alternatively to X (which in thi... |
65b23f0e57a5355d119422b4fd130c1cd66b62b9901cfb835f729d9ab92fe5ff | MATLAB | 3,542 | 142 | %% VL Scheme - General linear model example
% define model
% -------------------------------------------------------------------------
M = struct();
g = @(P,M,U) M.X*P;
M.g = g;
% set priors
% -------------------------------------------------------------------------
M.pE = [0; 0]; % prior expectation
M.pC = eye... |
ef1b94d39791d94094b12fd8288eddadb0862b6d7fe60d3a6592de5edec99102 | MATLAB | 3,551 | 96 | function sPupil = ETC_SaveEpochs(intSelectEpoch)
%get globals
global sETC;
global sFigETC;
%get file
sPupil = sFigETC.sPupil;
if isfield(sPupil,'sEpochs') && ~isempty(sPupil.sEpochs)
%message
ptrMsg = dialog('Position',[600 400 250 50],'Name','Applying epoch data');
ptrText = uicontrol('Parent',ptrMsg,.... |
8a69750408812a9a7cc4f9fa60c000ebdc6b8384958562e286f27626ec51766a | MATLAB | 3,566 | 135 | function varargout=tubeplot(curve,r,vecC,intPointsPerRadius,ct)
% Usage: [x,y,z]=tubeplot(curve,r,vecC,n,ct)
%
% Tubeplot constructs a tube, or warped cylinder, along
% any 3D curve, much like the build in cylinder function.
% If no output are requested, the tube is plotted.
% Otherwise, you can plot by using sur... |
1268d86044b2d88ca8c8b95d3358d5185bdeadb587b256d114d6f1634e7a79a0 | MATLAB | 3,573 | 86 | %Copyright © 2018- Sampsa Pursiainen & ZI Development Team
%See: https://github.com/sampsapursiainen/zeffiro_interface
function [exp_multires_dec, exp_multires_ind, exp_multires_count] = exp_make_multires_dec
n_decompositions = evalin('base','zef.exp_multires_n_decompositions');
[n_levels] = evalin('base','zef.exp_mul... |
aa1f33fe5439d7b70fdbf9225e40ecb3b8df3817265e7cd31ebac18d99982665 | MATLAB | 3,579 | 84 |
%--------------------------------------------------------------------------------
% pomdp_bss.m
%
% This analysis is included in
% Experimental validation of the free-energy principle with in vitro neural networks
% Takuya Isomura, Kiyoshi Kotani, Yasuhiko Jimbo, Karl Friston
%
% Copyright (C) 2022 Takuya Isomura
% (R... |
7ef3ae0294f1dd8fadf065e0eef394f3b8e3c20ec3f9e6fa463384b54d5d08f9 | MATLAB | 3,585 | 150 | function colorbar_from_figtool_fn(figtool, filename_without_suffix, filetypes, kwargs)
%
% colorbar_from_figtool_fn
%
% Takes in a handle to a Zeffiro Interface Figure tool (possibly saved to a
% Matlab .fig file), extracts the colobar from it and saves it to files with
% given set of suffixes.
%
% Inputs:
%
% - figtoo... |
f3d5380567a2a2baa78f64d0522b5d645dcc49e03293a7e78aa0cbe82c93cd42 | MATLAB | 3,585 | 110 |
function [nodes,flag_val] = zef_fix_negatives(zef, nodes, tetra)
if isempty(zef)
zef = evalin('base','zef');
end
threshold_value = zef.meshing_threshold;
fix_n_max = eval('zef.mesh_optimization_repetitions');
fix_param = 0.5;
fix_it = 0;
c = find(zef_condition_number(nodes,tetra)<0);
fix_length = length(c);
%c... |
1c22d599681eba90cdcae93dc36dbc5273a54b689585267c3cceaa62c6c583d0 | MATLAB | 3,587 | 108 | function [Aout,AB,dur_real,IACt] = MakeOSCORNoiseStim(OSCORtype,fLow,fHigh,dur,Fsample,RandSeed,ITD,fm,N,Seq_Step_Duration,ContraChan)
% fLow: lowest frequency component (Hz)
% fHigh: Highest frequency component (Hz)
% dur: duration of the sound (ms)
% Fsample: sampling frequency (Hz)
% RandSeed: random seed for... |
953a0b570098a3bd0e31f26a3d4a67c0b423b9d1c64a6d712dd388ec3f47acc0 | MATLAB | 3,603 | 91 | function hessfd = getHessianFD(problem, x, d, storedb, key)
% Computes an approx. of the Hessian w/ finite differences of the gradient.
%
% function hessfd = getHessianFD(problem, x, d)
% function hessfd = getHessianFD(problem, x, d, storedb)
% function hessfd = getHessianFD(problem, x, d, storedb, key)
%
% Returns a f... |
c891eadab6cb9fd1911a9518255d1c8d0c530e41f390606e261d2161c6ceb70e | MATLAB | 3,615 | 91 | function [params] = structural_learning(params)
% for structural learning
%
% Reviewed Darik A O'Neil 04-15-2023
%
% Purpose: Consolidated function for structural learning
%
% To accomplish this we do steps
% (1, Initialize Potential Neighborhoods)
% (2, Learn Neighborhoods)
% (3, Learn Structures)
% (4, Save Model P... |
2fb7dcb7d7b91465b11aab2599f3ce7c796377d0f7ea5694c98fe795397caf3e | MATLAB | 3,617 | 107 | %% Nat Comms Ictogenesis Figure 7
clear
% Load data
load('20230612_KA103_SponPulso');
%% Plot
figure
tiledlayout(2,4,'tilespacing','tight');
cmap = lines(7);
% KA103
MOUSE = "KA103";
SZID_ = "SZ_KA103_D201027_1632_T062781";
Sp_ = SpPulso.(SZID_);
nexttile(1,[1 2])
yl = [-48 48];
plot(Sp_.eegtt... |
4614a04e8a599ad377f20ed55bc99909f24783ada1c179d680c81fb94122f6f3 | MATLAB | 3,617 | 90 | function [Spectra] = Fun_ReadRawFileAndDoFFT(Path, FileNames,...
NumRowInEpoch, SamplingFrequency,FrequencyRange,...
ExpectedResolutionInSpectrum)
%% Written and updated by M. Nollet (Aug 2023)
% Adapted a script written by R. Winsky-Sommerer (DE_RWS Jan 2103)
%
% Function to be used to compute Power Sp... |
dc0c453beff4a21083b0b1909eff7bed79d95c347cb4ee1dc0bc1e72ad40ceae | MATLAB | 3,631 | 69 | zef_data = zef_additional_options_app;
zef.fieldnames = fieldnames(zef_data);
for zef_i = 1:length(zef.fieldnames)
zef.(zef.fieldnames{zef_i}) = zef_data.(zef.fieldnames{zef_i});
if find(ismember(properties(zef.(zef.fieldnames{zef_i})),'ValueChangedFcn'))
zef.(zef.fieldnames{zef_i}).ValueChangedFcn = '... |
948e5f54d0a83dbef7053f3596077505206df599716d587acb76d3e11e6b6775 | MATLAB | 3,632 | 113 | function [vecRho,vecP] = getTuningRho(vecResp,vecAngles,boolPlot)
%getTuningRho Calculates the tuning curve smoothness metric rho
% [vecRho,vecP] = getTuningRho(vecResp,vecAngles)
%
%Inputs:
% - vecResp; [1 x Trial] response vector
% - vecAngles; [1 x Trial] stimulus orientation vector [in radians]
%
%Note: yo... |
4b7a8ba17152ef61aa803f701cbd9431b91d727f0250d9beba8e6434355270dc | MATLAB | 3,655 | 123 | function [h,p,sigPairs] = ttest_bonf(x,pairs,alpha,tail)
%TTEST_BONF Hypothesis test: Isolate differences in
% Repeated-Measures Analysis of Variance.
%
% [H,P,SIGPAIRS] = TTEST_BONF(X,PAIRS,ALPHA,TAIL) performs a
% set of Bonferroni corrected t-tests to determine which pairs of
% treatments could have the same... |
05b04361d18b71bd99b905703da0a4c22f01d8b4b2efb2fe776a92e75088f484 | MATLAB | 3,673 | 84 | %% initialize
clear; clc;
currentPath = pwd;
cd ../temp
load('tempFileForAnalysis.mat');
cd(pathBIDS);
cd derivatives
pathDeriv = pwd;
cd(pathDeriv);
cd('spm-preproc'); % For saving preprocessed file from SPM
pathPrepFile = pwd;
prepSubjFolders = dir('sub*');
cd(pathDeriv);
cd('behavior');
pathBehav = pwd;
load('be... |
e679d1fe9c5be3ee846cde147ec700b7246ffb449bbe484cf60db0f5367acb7d | MATLAB | 3,682 | 94 | function checkgradient(problem, x, d)
% Checks the consistency of the cost function and the gradient.
%
% function checkgradient(problem)
% function checkgradient(problem, x)
% function checkgradient(problem, x, d)
%
% checkgradient performs a numerical test to check that the gradient
% defined in the problem structure... |
ceb0cd1781a2ecfb82f43e72ed68746daf5ce85f609ca76e30d715a358489c59 | MATLAB | 3,691 | 75 | %Copyright © 2018- Sampsa Pursiainen & ZI Development Team
%See: https://github.com/sampsapursiainen/zeffiro_interface
function [meas_data] = zef_find_source(zef)
if nargin == 0
zef = evalin('base', 'zef');
end
source_positions = eval( 'zef.source_positions');
noise_level = 10^(eval( 'zef.inv_synth_source(1,8)')/20... |
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