sha256 stringlengths 64 64 | language stringclasses 27
values | size int32 1 491k | lines int32 1 21.8k | content stringlengths 1 200k |
|---|---|---|---|---|
f5b6abe836577a22f49b9c90140eaac5c5356b4964f5aed40b51adc270aa206d | MATLAB | 1,562 | 69 | function T = tn_vector()
T.expectation = @TN_vector_expectation;
function [exp] = TN_vector_expectation(mus, taus)
sigmas = 1.0 ./ sqrt(taus);
x = - mus ./ sigmas;
%lambdax = norm.pdf(x)/(0.5*erfc(x/sqrt(2)));
lambdax = pdf('Normal',x,0,1) ./ (0.5 * erfc(x/sqrt(2)));
ex... |
a3399e4d5566a4c2eea3861bebcacddc1cdb808fe62c0c35ba456c21cc2db5de | MATLAB | 1,563 | 58 | function fdata = fit_seizure(subject_idx,model,npts_per_fit)
%matlabpool_cluster(4)
debugmode = false;
%npts_per_fit = 1e5;
padding_minutes = 5; % Start this many minutes before sleep onset
d = bt.load_seizure_data(subject_idx,'Cz',30,4);
st(6) = 1200;
st(10) = 280;
st(11) = 720;
start_idx = st(subject_idx)... |
6e712cddc8230f2075f594478e25df40e1e028fe63a67128855921813b166b63 | MATLAB | 1,564 | 53 | function parts = strsplit(splitstr, str, option)
%STRSPLIT Split string into pieces.
%
% STRSPLIT(SPLITSTR, STR, OPTION) splits the string STR at every occurrence
% of SPLITSTR and returns the result as a cell array of strings. By default,
% SPLITSTR is not included in the output.
%
% STRSPLIT(SPLITSTR, STR, O... |
0bd456b5db18a2c88666b54e8ef336e823fa4b2c97ee4dbca8fa16b64b633ee8 | MATLAB | 1,569 | 44 | function [] = BCI_DAT_to_TSV_converter(foldername)
clearvars -except foldername
extension = '.dat';
minsize = 9e6;
newnames = {'C3'; 'C1'; 'Cz'; 'C2'; 'C4'; 'CP3'; 'CPz'; 'CP4'; 'M1L'; 'M1R'; 'M2L'; 'M2R'; 'M3L'; 'M3R'; 'M4L'; 'M4R'};
mkdir(foldername, 'output');
files = dir(fullfile(foldername, ['*' exte... |
bf09036293770d5b2b59d806fdc4fe463c888c9e548006a80a7195526cf64572 | MATLAB | 1,569 | 60 | function [model] = ml_binaryclass_SVM(X,y,options)
% ml_binaryclass_svm(X,y,options)
%
% Description:
% - Fits a linear classifier by maximizing the margin using SVM
%
% Options:
% - addBias: adds a bias variable (default: 0)
% - lambdaL2: strenght of L2-regularization parameter (default: 0)
[nTrain,nFeatures] ... |
142e722ca3425bfed085f17ee760e498655d94f7d254a4cb4d3cfdbe170e78cd | MATLAB | 1,571 | 55 | % This is an example of using NMF to find patterns in the core-MYC
% signature.
% Copyright (C) <2012> <Yifeng Li>
%
% 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 Lic... |
ec375d7e7a32c836794d04cb82c53577f92314e7bdb0be1503a3dfb4836c9d25 | MATLAB | 1,571 | 48 | function [Tdummy, idxCell, idxCellInfo] = nk_ScopeCellRetDummyFromTable(act, T, uniquelim)
if ~exist("uniquelim","var") || isempty(uniquelim)
uniquelim = 20;
end
Vars = T.Properties.VariableNames;
nVars = numel(Vars);
Tdummy = []; Vdummy = [];
idxCell = false(1,nVars);
idxCellInfo = [];
switch act
cas... |
18859109e3ae7b16bcd9af8df1d3a07e8325a73c33d67509cb19c322f8304ddf | MATLAB | 1,572 | 50 | function [ GRAPHSPARSITY, PX, act ] = cv_graphSparsity_config(GRAPHSPARSITY, PX, parentstr, defaultsfl)
SparsityPerc = [];
if ~exist('defaultsfl','var') || isempty(defaultsfl); defaultsfl = false; end
if ~defaultsfl
if isfield(GRAPHSPARSITY,'perc') && ~isempty(GRAPHSPARSITY.perc), SparsityPerc = GRAPHSPARSI... |
6663186b08f23ca62d09a41d2e096ac5dd5a48d5d0e112abecb630d6b85bbd9c | MATLAB | 1,573 | 61 | function Ypet = cv_apply_JuSpace(Yimg, brainmask, atlas, cortype, autocorcorrect, petlist)
% add JuSpace path
dir_tool = '/opt/matlab/JuSpace_v1.3/';
% create global variable to store atlas matrix
global JSMEM
% create atlas matrix if not already stored in JSMEM
if ~isfield(JSMEM,'atlas_matrix') || isempty(JSMEM.at... |
5d2d3260d494923eecbe1fbc6979be531719069fabaf4d34f5c1dbb8d3baa763 | MATLAB | 1,576 | 59 | function [n, npw, ts, wave] = plx_waves_v(filename, channel, unit)
% plx_waves_v(filename, channel, unit): read waveform data from a .plx or .pl2 file
%
% [n, npw, ts, wave] = plx_waves_v(filename, channel, unit)
%
% INPUT:
% filename - if empty string, will use File Open dialog
% channel - 1-based channel number o... |
20764be5bc6a9b86f8c965d23b24a16fd2a7f1d9f469d880a348ac15f2706be2 | MATLAB | 1,579 | 51 | function performance = nk_MultiClassAssessConfMatrix(confmatrix, label, pred, errs, crit)
if ~exist('crit','var') || isempty(crit),
crit='all';
end
sumconf=sum(sum(confmatrix));
P=0; inan = isnan(pred); pred(inan) = []; label(inan)=[];
% Calculate sub confusion matrix for EACH GROUP vs the REST
uL = unique(label);... |
629ff642c4de091831d4120b582068b8713f18ed5c679afa5187c070bb83b794 | MATLAB | 1,579 | 49 | % SB2_FORMATTIME Pretty output of diagnostic SPARSEBAYES time information
%
% STRING = SB2_FORMATTIME(ELAPSEDTIMEINSECONDS)
%
%
% Copyright 2009, Vector Anomaly Ltd
%
% This file is part of the SPARSEBAYES library for Matlab (V2.0).
%
% SPARSEBAYES is free software; you can redistribute it and/or modify it
% under th... |
c8c0932fdacff52c9af69a48ba3cfbdd38edec3c0f9fc7f99ff80126760e29e4 | MATLAB | 1,579 | 66 | % demonstration file for NMFLibrary.
%
% This file illustrates how to use this library.
%
% This file is part of NMFLibrary.
%
% Created by H.Kasai on July 24, 2017
clc;
clear;
close all;
%% generate synthetic data of (mxn) matrix
m = 500;
n = 500;
V = rand(m,n);
%% Initialize of rank to be factorized
rank ... |
feb9f2a2d2f748e696ba9b5200b95536520f093e9049c787cf6ee1fc9b51ede2 | MATLAB | 1,579 | 37 | function [ad] = PL2AdTimeSpan(filename, channel, startTime, endTime)
% PL2AdTimeSpan(filename, channel, startTime, endTime): read a span of a/d data from a .pl2 file
% returns a/d values in millivolts
%
% examples:
%
% ad = PL2AdTimeSpan(filename, channel, startTime, endTime)
% ad = PL2AdTimeSpan(filenam... |
0ba9c2bc8366bb4d79dda3dc80dc9008ad5d93b6f8f5bbb8fd4da816347fcb6a | MATLAB | 1,580 | 63 | function db_data = db_fit_make_pp(state,cutdown)
% This function returns the db_data corresponding to a single state
% db_data contains the power spectrum in the matrix pp
% it also has all the corresponding parameter values required to reconstruct it
% The n_d cutdown can be applied at this point
if nargin < 2 ||... |
9a41666676247baf036075d0cba496092d9f9e0a657c554cd5cefaa21881fc09 | MATLAB | 1,581 | 43 | function palm_error(ME)
% Print error messages somewhat similarly as it would
% natively in Octave or Matlab, but does not necessarily
% crash the calling function, such that PALM can exit
% cleanly even if there are errors.
%
% Usage:
% palm_error(ME)
%
% - ME : MException object (or a struct with
% similar fie... |
0760e30d84c8eb1e7500d16373616cf24f94b3e70329aca9aec10c9ae8d74f2c | MATLAB | 1,583 | 47 | % Pull group info from multiple grouping files. Uses unix 'find' to get all *genotype.txt files
%
% Jeff Eilbott, 2017, jeilbott@surveybott.com
function [genotypes,G] = summarizeGenotypes(path,varargin)
p = inputParser;
p.addRequired('path',@isdir);
p.addParameter('findStr','*genotype.txt',@ischar);
p.addParameter('ta... |
618b8aea1d544b49422230bf1849fe2364e82fe474c8ccf534e890713898f656 | MATLAB | 1,587 | 42 | function [nCoords, nDim, nVTMode, c] = plx_vt_interpret(ts, sv);
% plx_vt_interpret - interpret CinePlex video tracking data
%
% [nCoords, nDim, nVTMode, c] = plx_vt_interpret(ts, sv);
%
% INPUT:
% ts - array of timestamps (in seconds) (see plx_event_ts.m)
% sv - array of strobed event values (see plx_event_ts.m)
%... |
600115eb33dcfd4e1ccc87da28388f69bf74ac9bffe343bb88da3ef5433bf624 | MATLAB | 1,590 | 46 | function [Hpos,Hneg] = diversity_coef_sign(W, Ci)
%DIVERSITY_COEF_SIGN Shannon-entropy based diversity coefficient
%
% [Hpos Hneg] = diversity_coef_sign(W,Ci);
%
% The Shannon-entropy based diversity coefficient measures the diversity
% of intermodular connections of individual nodes and ranges from 0 to 1.
%... |
c2c2c05a6ea44907c44925080f5f00b4df4661a51dc9b1d60bca139f7e5ccdd2 | MATLAB | 1,591 | 71 | % demonstration file for NMFLibrary.
%
% This file illustrates how to use this library.
%
% This file is part of NMFLibrary.
%
% Created by H.Kasai on July 24, 2017
clc;
clear;
close all;
%% generate synthetic data of (mxn) matrix
m = 150;
n = 150;
V = rand(m,n);
%% Initialize of rank to be factorized
rank ... |
f80748f93208aa30aa2936ca5f726980f06af183667c7d754af6e0da6f27249c | MATLAB | 1,592 | 63 | function testptb()
Screen('preference','skipsynctests',2);
Screen('Preference', 'TextRenderer', 0);
backgroundColour = [0.3 0.3 0.3];
name = 'test';
%-----dots stimulus
n = dotsStimulus();
n.name = name;
n.size = 5;
n.speed = 4;
n.dotType = 2; %high quality dots
n.dotSize = 0.2;
n.density = 25;
n.colour = [0.45 0.45... |
a60cb53789d57a16706e654e39d4776e2134ab253dfbb665efbd713e7da34bf8 | MATLAB | 1,595 | 46 | function paramfl = nk_PrepPreprocParams(PREPROC, paramfl, analysis, modalind, ll, curlabel)
global VERBOSE MULTI
paramfl.PREPROC = PREPROC;
if analysis.Model.NumPreMLParams > 0
% Retrieve optimised parameters from GDdims
paramfl.PXfull = nk_ReturnParamChain(PREPROC, 1);
% Search for parameter ... |
6826580c91ceb1fd4ba689f23d65a47eab264b51ad0c0f7cb75fbc9de6d7450f | MATLAB | 1,597 | 56 | function W = normalize_W(W, type)
% function W = normalize_W(W, type)
%
% Normalize columns of W using:
% 1 - use 1-norm [default]
% 2 - use 2-norm
% k - multiply the 1-norm by k
%
% This should work both for matrices and tensors (only for Convolutive NMF)
%
% 2010-01-14 Graham Grindlay (grindlay@ee.columbia.edu)
%... |
b577f3f6d0a44bfa086bf46189eec73d159acbaae4ee426e39b4f0121d7bc65b | MATLAB | 1,598 | 45 | function formatedClassLabels=changeClassLabels01(originalClassLabels)
% Change class labels to 0,1,2,...
% Usage:
% formatedClassLabels=changeClassLabels01(originalClassLabels)
% originalClassLabels: column vector of numbers of string cells.
% formatedClassLabels: column vector including the 0,1,2,3,...class labels
% ... |
a5e0c26bbc126966e0a12d8d022026c0d75b0612b4f6d13e4ebd1328e736dc42 | MATLAB | 1,601 | 46 | function blocks = components(A)
%COMPONENTS Finds connected components in a graph defined by a adjacency matrix
%
% blocks = components(A)
%
% Finds connected components in a graph defined by the adjacency matrix A.
% The function outputs an n-vector of integers 1:k in blocks, meaning that
% A has k components. The v... |
4157dc20b0f45484b5e4b04b9c79634c7d83b22bbec1d654f99995416c84083f | MATLAB | 1,602 | 60 | function [P,Q,R,SS,Xhat]=estimatePQRS(Y,rank)
% Estimate the paramaters of the dynamical systems
% This function is called by ds kernel
% Y: matrix
% rank: scalar, matrix rank
%%%%
% Copyright (C) <2012> <Yifeng Li>
%
% This program is free software: you can redistribute it and/or modify
% it under the terms of the G... |
8672b09376d57fe4438f20fb2fd6ab6f2cda07a0d60211678f8edf88399f604d | MATLAB | 1,602 | 46 | function UpdateCVDatamat
spm5ver = nk_CheckSPMver;
if spm5ver
P = spm_select(Inf,'.*CVdatamat.*mat','Select CVdatamats');
else
P = spm_get(Inf,'*CVdatamat.*mat','Select CVdatamats');
end
for i=1:size(P,1)
pth = deblank(P(i,:));
fprintf('\nLoading: %s',pth)
load(pth)
if ~exist('GD','var')
... |
53925d19bc91e4988c4201008dfc22cc6d1ff348c6a3726e19620ac8c2a6d997 | MATLAB | 1,603 | 43 | function [] = BCI_Dat_to_EDF_converter(foldername)
clearvars -except foldername
extension = '.dat';
minsize = 18e6;
newnames = {'C3'; 'C1'; 'Cz'; 'C2'; 'C4'; 'CP3'; 'CPz'; 'CP4'; 'M1L'; 'M1R'; 'M2L'; 'M2R'; 'M3L'; 'M3R'; 'M4L'; 'M4R'};
mkdir(foldername, 'output');
%end added now
files = dir(fullfile(fo... |
796bff611989f2ba2bc152ee88350bf67eadb47d1861444e3ad88a637841a457 | MATLAB | 1,604 | 52 | function [CURACT, act] = nk_Unitnorm_config(CURACT, parentstr, defaultsfl)
CURACT.UNITNORM = 1; tMETHOD = 1; ZeroOut = 1; CALIBUSE = 2;
if ~exist('defaultsfl','var') || isempty(defaultsfl); defaultsfl = false; end
if ~defaultsfl
if isfield(CURACT,'METHOD'), tMETHOD = CURACT.METHOD; end
if isfield(CURACT... |
a9a09fef7a21e5516b293bb2824ea09f6c28ee0d3e0ebd7d740d7e6e3c81d0f1 | MATLAB | 1,604 | 73 | clear all
close all
for monkey=1
if monkey==1
monkey_name='Jupiter';
elseif monkey==2
monkey_name='Mercury'
end
n=0;
n2=0;
n3 = 0;
data_name=[monkey_name,'_stepwiseGLM_result.mat'];
load(data_name)
[a,b]=size(mdl_result);
[c,d]=size(mdl_result_TOJ)
... |
06bbac1c5d88e460899d91afc2aef9796677e341e011374d0af33a94af753c4c | MATLAB | 1,605 | 45 | function [EC,ec,degij] = edge_nei_overlap_bu(CIJ)
% EDGE_NEI_OVERLAP_BU Overlap amongst neighbors of two adjacent nodes
%
% [EC,ec,degij] = edge_nei_bu(CIJ);
%
% This function determines the neighbors of two nodes that are linked by
% an edge, and then computes their overlap. Connection matrix must be
% ... |
44fa221b9c91f79153bc8dbf3d08b05fb0920d85d0dd6ba2e2c618a336f7f179 | MATLAB | 1,607 | 47 | function [epoch_wavDS, epoch_wav,f] = EEGep_wav_ds(EEG_ep_choi,oc)
% EEGEP_WAV_DS Wavelet decomposition and downsampling of epoched data.
% EEGep_wav_ds(EEG_ep_choi,oc) Performs wavelet decomposition on a single channel of
% epoched EEG/ LFP data. Epochs are concatenated and z-scored before wavelet decomp.
% ... |
4d2ec6998223144a7ec5a4a8658dbf9f9b217a4a0ac48332748907eb98ae0e63 | MATLAB | 1,609 | 40 | function vargout = nk_GetVariateDescription(res, descrip)
if exist('descrip','var') && ~isempty(descrip)
vargout = descrip;
end
if isfield(res,'Y') && iscell(res.Y)
vargout.num_variates = length(res.Y);
vargout.num_variates_str = ['Number of Variates: ' num2str(length(res.Y))];
if isfield(res,'datades... |
bbef0850b6aa8549614d7715fa0c981f0a802cf48640050494a1519a00b75eb2 | MATLAB | 1,609 | 37 | function [cv, K, P] = nk_INDEPpartition(Groups, Labels, LGOflip, OutReps)
% =========================================================================
% cv = nk_INDEPpartition(Groups, Labels, LGOflip, OutReps)
% =========================================================================
% This function performs a leave-gr... |
ec5dd4c9826bf3582164478b5b779993da292004594b57057ddb5ef58733af44 | MATLAB | 1,613 | 50 | function MAT2DAT(D,dataPointName,dataStr)
% Write a dataset in MATLAB into .dat format
% Usage:
% MAT2DAT(D,dataPointName,dataStr)
% D: matrix, each column is a multivariate data point
% dataPointName: column vector, the numeric name of each data point, for
% example, dataPointName=[0;1;1;1;0;0];
% dataStr: string, the... |
28b58a07add10c04d24d3b5b415271210e68c555ceb388f5c6dcadff555b4b05 | MATLAB | 1,614 | 50 | function [Xdiag, samplesize, accIdx, yvect] = diagonalize(X, y)
% ----------------------- Input ------------------------------
% X: cell array. samples of all tasks (each row is a sample)
% y: cell array. optional.
%
% designed for cell arrays.
%
% ----------------------- Output -----------------------------
% Xdiag... |
c239bd0f5654b6dd40d3fa3ecf1ffe4c0a27775ce36f88fa722e48b549e6db25 | MATLAB | 1,615 | 55 | function [pplus , pminus, delta_plus, delta_minus, marginList, dists] = ...
nk_SimbaHelperGpu(g_X_train, g_X_train_square, g_Y_train, Y_train, g_alphas, xs, labelsSet)
g_xs = GPUsingle(xs);
F = (g_alphas.^2)';
S = g_X_train(g_xs,:);
SL = g_Y_train(g_xs);
Pnum = size(g_X_train,1);
Snum = size(S,1);
% P2 =P.^2;
P... |
fe3058a97feb3908e5197b998997d43d2fc834b2f10ed07fa8f9909446c6fcf0 | MATLAB | 1,616 | 46 | function [ENSEMBLE, act] = nk_Ensemble_config(NM)
%global NM
nk_PrintLogo
act = nk_input('ENSEMBLE LEARNING PARAMETERS', 0,'m', ...
['Use ensemble learning|', ...
'Classifiers combination strategy|', ...
'Ensemble learning strategy|' ...
... |
1c93399222d8dd8e9a3e1b930777f7c69cf6c6e187c5b646ea868bde025d7621 | MATLAB | 1,618 | 50 | % ========================================================================
classdef myUserFunctions < userFunctions
%> @class myUserFunctions
%> @brief Customised user functions for a task run
%>
%> Copy and edit this file to add your own functions and variables for use
%> in your task. You can rename the class and ... |
d6925ab4a167af146ae2ecb6acadf261395ba5553aad777f44953e3302e2edfc | MATLAB | 1,618 | 55 | function test_nmf_online()
%
% demonstration file for SVRMU.
%
% This file illustrates how to use this library.
% This demonstrates stochastic multiplicative updates (SMU) algorithm and
% stochastic variance reduced multiplicative updates (SVRMU) algorithm.
%
% This file is part of NMFLibrary.
%
% Created by H.Kasai ... |
074988814dd91c2345cfcce75ffbf934a9eaae5f83e61a680db1f687dc7e89f6 | MATLAB | 1,619 | 48 | function [ LABELMOD, act ] = nk_LabelMod_config( LABELMOD, parentstr, defaultsfl )
LABELMODDEF_SCALE = 1; LABELMODDEF_POLY = 1;
if ~exist('defaultsfl','var') || isempty(defaultsfl); defaultsfl = false; end
if ~defaultsfl
if isfield(LABELMOD,'TARGETSCALE'), LABELMODDEF_SCALE = LABELMOD.TARGETSCALE; end
... |
72627dca8b4a3d999eb06a7ef680fa9c476d770371d2837e4baada1c52f6c234 | MATLAB | 1,621 | 68 | function model = ml_binaryclass_elastic_net(X,y,options)
% ml_binaryclass_logistic(X,y,options)
%
% Description:
% - Fits a classifier using logistic regression
%
% Options:
% - addBias: adds a bias variable (default: 1)
% - lambdaL2: strenght of L2-regularization parameter (default: 0)
%
% Authors:
% - Nikola... |
b1ddc67f92820c0b53002873b3496fdc25334e3d85e996f46f629c962c390660 | MATLAB | 1,621 | 42 | function nk_PrintLogo(maindlg)
global NMinfo EXPERT SPMAVAIL DEV
clc
if ~SPMAVAIL
%cl = [0.1,0.5,0];
mode = 'non-imaging mode';
else
%cl = NMinfo.cllogo;
mode = [];
end
if exist('maindlg','var') && maindlg
fprintf('\n\t*******************************************')
fprintf('\n\t****\\ ... |
53ebeb2f5019e9a2fbc348929919a041b05f4caadf83f9b6a635260fc56ce705 | MATLAB | 1,623 | 42 | function [ nexFile ] = nexAddWaveform( nexFile, WFreq, timestamps, waveforms, name )
% [nexFile] = nexAddWaveform( nexFile, WFreq, timestamps, waveforms, name )
% -- adds waveform variable to nexFile data structure
%
% INPUT:
% nexFile - nex file data structure created in nexCreateFileData
% startTime -... |
58e18272d146f45e2976c4097f83cd8ed412ab67356cd3807f743b637aed9d60 | MATLAB | 1,624 | 45 | function [ad] = PL2AdBySource(filename, source, channelInSource)
% PL2AdBySource(filename, source, channelInSource): read all a/d data for the specified channel from a .pl2 file
% returns a/d values in millivolts
%
% examples:
%
% ad = PL2AdBySource(filename, source, channelInSource)
% ad = PL2AdBySource... |
cb723eb86a1b72d9b2c9b74100a0c488c268c00802b5cb20a857e1137622bd70 | MATLAB | 1,629 | 61 | classdef HEDTagger < handle
%HEDTagger
properties
outputFormat = 'json'
headings = {'onset','timeType','HED','tick','message','uuid','source'}
timezone = 'local'
end
methods
function me = HEDTagger()
end
function setupPython(me)
disp('We need Python V3.12 with pip3 command, will try to instal... |
35532c46865a0314c730950e37c09d3231011b54658111a5ee8232e58e3a16cc | MATLAB | 1,630 | 61 | classdef HEDTagger < handle
%HEDTagger
properties
outputFormat = 'json'
headings = {'onset','timeType','HED','tick','message','uuid','source'}
timezone = 'local'
end
methods
function me = HEDTagger()
end
function setupPython(me)
disp('We need Python V3.12 with pip3 command, will try to instal... |
7907e26b3fd68d81e28a43199abec2c51cd954c3a48dfb9b9b7376a837c86c67 | MATLAB | 1,630 | 58 | function [ model ] = ml_binaryclass_extreme(X,y,options)
% ml_binaryclass_extreme(X,y,options)
%
% Description:
% - Classifies data using generalized linear model with a extreme link
% - In order to fit the data, link is passed to
% MATLAB's glmfit, along with the design matrix and label vector
%
% Options:
% ... |
f11bf08f3b578e1f5f0864292e5acf28d8a90530fec52d63cd3c85872a9c17eb | MATLAB | 1,631 | 54 | function [varargout] = RenyiMIToolbox(functionName, alpha, varargin)
%function [varargout] = RenyiMIToolbox(functionName, alpha, varargin)
%
%Provides access to the functions in RenyiMIToolboxMex
%
%Expects column vectors, will not work with row vectors
%
%Function list
%"Entropy" = H_{\alpha}(X) = 1
%"MI" = I_{\alpha}... |
f1bf55f2d30da22fcd7c4bd9fd4720e8dc4db2a2853de2053fdd7590f65e507a | MATLAB | 1,631 | 60 | function D = agreement(ci,buffsz)
%AGREEMENT Agreement matrix from clusters
%
% D = AGREEMENT(CI) takes as input a set of vertex partitions CI of
% dimensions [vertex x partition]. Each column in CI contains the
% assignments of each vertex to a class/community/module. This function
% aggregates the partit... |
5a6eb59affb4537712126c8a8fdd560f44b9827bd77589587c40f801382fd9f4 | MATLAB | 1,632 | 61 |
clear all
close all
for mm = 2
if mm ==1
name = 'Jupiter';
elseif mm == 2
name = 'Mercury';
elseif mm ==3
name = 'Mars';
end
load([name,'_test_data_v3_align0to8.mat'])
bin_size_constant=250;
bins_max=(data.trial_length-500)/bin_size_constant;
it=500;
f_bins=bins_max;
f_bin_siz... |
c01536fa9b8c819091a8ff8761db2d27e93e6fbdd2ab39d6b398c7dc607a2c42 | MATLAB | 1,632 | 62 | classdef SpikelistCluster < MClust.ClusterTypes.DisplayableCluster
% keeps list of spikes
properties(SetObservable)
mySpikes = [];
end
methods(Static, Access=public)
function bool = Modifiable()
bool=true;
end
end
methods
% --------------------------- Constructor
fu... |
7db47299e972b0385d15735ee29ce7be62bb2d5ccf689ce971570cdcbeb31cef | MATLAB | 1,633 | 65 | <<<<<<< HEAD
function map = spectral(m)
% Returns MNI's black-purple-blue-green-yellow-red-white colour map.
if nargin < 1
m = size(get(gcf,'colormap'),1);
end
values = [
0.2000 0.2000 0.2000
0.4667 0.0000 0.5333
0.5333 0.0000 0.6000
0.0000 0.0000 0.6667
0.0000 0.0000 0.8667
0.0... |
64983656b54f36e1a8391491142a6d0b35712a10e1be73d3a5ff359b26a36eac | MATLAB | 1,635 | 67 | function CutterOption_CompareAverageWaveforms(self)
% plots average waveforms of only shows
%
% INPUTS
%
% OUTPUTS
%
% NONE
% ADR 2013
%
% Status: PROMOTED (Release version)
% See documentation for copyright (owned by original authors) and warranties (none!).
% This code released as part of MClust 3.0.
% Version con... |
fefcde2da4bbfcac70e5df6c885ea19fef5f8791aa87af1061321cbe11368762 | MATLAB | 1,648 | 41 | function perf = ComputeEnsPerf(perf, O)
nclass = size(O.TrHDperf,3);
% Ensemble performance
perf.Ens_TrDecPerf = O.TrHDperf;
perf.Ens_CVDecPerf = O.CVHDperf;
perf.Ens_TrTargPerf = O.TrHTperf;
perf.Ens_CVTargPerf = O.CVHTperf;
perf.Ens_TrTargDiv = O.TrDiv;
perf.Ens_CVTargDiv = O.CVDiv;
for curclass... |
a809c74179e88663851f63046be50b00a34b1858964ff476f66ef2d6ef9b4295 | MATLAB | 1,652 | 50 | %% FUNCTION LSSMTC
% permute labels of L2 match L1 as good as possible
%
%% LICENSE
% 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 optio... |
b17149f4de51ffff9e705be7d0b1f616a26eca96db7b9d5a150540c2def29d09 | MATLAB | 1,652 | 63 | function [U, solver_output] = solveU_ind(U0, V0, Ss, reg_l1, solver_options)
% solve U using non-negative l1 regularized regression.
solver = @pnopt_sparsa;
if nargin<5
solver_options = pnopt_optimset(...
'display' , 0 ,...
'maxfunEv' , 5000 ,...
'maxIter' , 500 ,...
'ftol'... |
0301a5589e003ac49fa54841ba85eb878eed4ab5d5c4ae117969775d270764fd | MATLAB | 1,653 | 35 | %%% script to plot the typical tempos as a function of typical body masses
% the data: (tempos in Hz, typical body masses in mg)
% ref_nums correspond to the 3rd revision of the manuscript (hopefully won't change)
% fireflies (5) crickets (2) crabs (2) fish (3) frogs (3) ... |
63c4cd644ebae5b6e9b99ebe518d71026cffd45f229bc8d27ddbdd9011f8f3bd | MATLAB | 1,655 | 57 | function [ model ] = ml_binaryclass_Cauchit(X,y,options)
% ml_binaryclass_Cauchit(X,y,options)
%
% Description:
% - Classifies data using generalized linear model with a Cauchit link
% - In order to fit the data, link is passed to
% MATLAB's glmfit, along with the design matrix and label vector
%
% Options:
% ... |
58c918baad5df36dcfdc05c1a82e007ff96be102148ca0ecfe9e416931e05432 | MATLAB | 1,657 | 56 | function [model] = ml_binaryclass_bagging(X,y,options)
% ml_binaryclass_bagging(X,y,options)
%
% Description:
% - Classification based on the highest prediction among models to bootstrap samples.
%
% Options:
% - subModel: name of the underlying model (default: brokenStump)
% - subOptions: options for subModel... |
7707ee72ac2faf31828fb9d14a425ebe535de8bff22944d17022fef380c41110 | MATLAB | 1,657 | 41 | function [upcovar,upmu] = updatecov(data,covar,mu,addrow,delrow,option)
% This function updates the mean and covariance matrix of the full data
% after adding or removing observations.
%
% Input arguments:
% data : the original data
% covar : the covariance matrix of the data
% ... |
cfdd205f2a09945ee8c039a4f441e5d1f470aaa58f8dd1604411b2b734b55089 | MATLAB | 1,662 | 58 | function th=rotateticklabel(h,rot,demo)
%ROTATETICKLABEL rotates tick labels
% TH=ROTATETICKLABEL(H,ROT) is the calling form where H is a handle to
% the axis that contains the XTickLabels that are to be rotated. ROT is
% an optional parameter that specifies the angle of rotation. The default
% angle is 90. TH ... |
302d0fa3b2601153acaa24eb7984c7f97398bcb293cbb4debf93e1284956c164 | MATLAB | 1,673 | 52 | function [label, n_subjects]= nk_DefineLabels(V, label, n_subjects, modeflag, addfl, CVstr, NaNflag)
fprintf('\n\n*** Label definition ***\n')
if exist('label','var') && ~isempty(label)
fprintf('\nPrevious %s-subjects'' label vector detected.', CVstr)
if addfl
fprintf('\nAdding new labels.')
else
... |
1018fd335d17b2e20b62849dc0fdaf9dd0ea7c329bd46471e7e8bc29f9bfca6b | MATLAB | 1,674 | 58 | function result=hl(x)
%HL computes the Hodges-Lehmann location estimate on the columns of x.
% The Hodges-Lehmann estimator is defined as
% hl(x)=med {(x_i + x_j)/2} with 1<=i<j<=n
% It can resist about 29% outliers.
% If x is a matrix, the location estimate is computed on the columns of x. The
% result is... |
dc331afb495d79ce7750b66f99745527633c6f41a651ecb71c7734e7a7e7f37e | MATLAB | 1,675 | 48 | function [K, runtime, Phi] = SPkernel(Graphs, features)
% Compute the shortest path kernel for a set of graphs (by exact matching
% of shortest path lengths)
% Copyright 2012 Nino Shervashidze
% Input: Graphs - a 1xN array of graphs represented just with adjacency matrices
% Graphs(i).am is the i'th adjacency matrix
... |
e0016c77f75e65bc1c3a94be5d1ebfeeb045e8dcca65c0b6f64fc6a3a97e767c | MATLAB | 1,675 | 41 | function varargout = nifti_stats(varargin)
% Conversion among various statistics
% FORMAT P = nifti_stats(VAL,CODE,OPT,PARAM)
% CODE can be one of
% 'CORREL' 'TTEST' 'FTEST' 'ZSCORE'
% 'CHISQ' 'BETA' 'BINOM' 'GAMMA'
% 'POISSON' 'NORMAL' 'FTEST_NONC' 'CHISQ_NON... |
46d230f4430464bdbbf9e5f048a386a4b06dfe4951973a9c10fcacc1043cb46a | MATLAB | 1,682 | 38 | function [act, param] = nk_GA_config(param, defaultsfl, parentstr)
GA.N = 10; % Number of chromosomes
GA.max_Iter = 100; % Number of iterations
GA.CR = 0.5; % Cross-over ratio
GA.MR = 0.5; % Mutation ratio
if ~exist('defaultsfl','var') || isempty(defaultsfl), de... |
be36811a613469447418ea49b5b4f19045a2555f5abbfc9fe8d4364931f1e56b | MATLAB | 1,682 | 49 | % This is an example of how to use nmf to dicover biological process and how to draw
% the heatmap afterthat.
%%%%
% Copyright (C) <2012> <Yifeng Li>
%
% 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 Foun... |
dee70bca4cd2991bacd48e846de9cd337699893fa553f157d452de11333cd12f | MATLAB | 1,684 | 60 | function weights = RGSonce(X_train, Y_train, extra_param)
m = size(X_train, 1); % Number of subjects
p = size(X_train, 2); % Number of dimensions
if ~isfield(extra_param, 'k'), extra_param.k = ceil(log2(size(X_train,1)));
if extra_param.verbose, fprintf(' k = %g', extra_param.k); end; end
k = extra_param.k;
if ~... |
9226040d7cf923347ec37a63a167671a1703d5c34f0496c1cbbcf919cc8323d3 | MATLAB | 1,687 | 56 | function [adfreq, n, ts, fn] = plx_ad_gap_info(filename, channel)
% plx_ad_gap_info(filename, channel): read a/d info from a .plx or .pl2 file
%
% [adfreq, n, ts, fn] = plx_ad_gap_info(filename, channel)
%
% INPUT:
% filename - if empty string, will use File Open dialog
% channel - 0-based channel number or channel... |
30c0da278a2228e5cc64423c1186272fa66de77ef8168e8890e077a18afc68b1 | MATLAB | 1,690 | 61 | %% FUNCTION trace_projection
% solves the Trace-norm projection problem.
%
%% OBJECTIVE
% argmin_X = 0.5 \|X - L\| + alpha/2 \|L\|
%
%% LICENSE
% 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 Fo... |
a3e8c896be49bd2a9124bd3f9596f276847f50f336c25160f12981917ad85859 | MATLAB | 1,690 | 24 | % Helper function with presets.
function J = customcolormap_preset(preset_name)
switch(preset_name)
case 'pasteljet'
J = customcolormap([0 .25 .5 .75 1], {'#9d0142','#f66e45','#ffffbb','#65c0ae','#5e4f9f'});
case 'red-yellow-blue'
J = customcolormap(linspace(0,1,11), ... |
d10bbd4c011264543469bb9ec00aa59d39654fd9cd11ba8f0f21958008b39552 | MATLAB | 1,690 | 50 | function [D,Reg_all] = mean_time_course_NM(data_mean,data_ROI,numberROIs,image_for_size)
%[D,Reg_all] = mean_time_course(data_for_mean, mask_ROIs,numberROIs)
global JSMEM
size_data = size(data_mean);
% resize atlas to image_for_size (NM.brainmask)
if ~isfield(JSMEM, 'ROI_matrix') || isempty(JSMEM.ROI_matrix)
[ROI... |
de00805b0c26ba731ea3d969e542847d4f7e3acb07272a50cdc24a9be0798d65 | MATLAB | 1,695 | 59 | % ========================================================================
%> @brief annulusStimulus TODO
%>
%>
%>
%> Copyright ©2014-2022 Ian Max Andolina — released: LGPL3, see LICENCE.md
% ========================================================================
classdef annulusStimulus < baseStimulus
properti... |
f65074e1acb4ef7fb0ec621a229072ffa47e2a5fe3e0e5999db7f5ab8408e02d | MATLAB | 1,699 | 90 | function [vertex,face] = read_vtk(filename, verbose)
% read_vtk - read data from VTK file.
%
% [vertex,face] = read_vtk(filename, verbose);
%
% 'vertex' is a 'nb.vert x 3' array specifying the position of the vertices.
% 'face' is a 'nb.face x 3' array specifying the connectivity of the mesh.
%
% Copyright (c)... |
2317749f5aa4e434051473fcf8db39a202e5e1bc25fc50ab20bb3a9eac3725a0 | MATLAB | 1,701 | 43 | function [pY, mpp] = nk_PerfICA(Y, mpp, k)
% Default values for 'pcamat' parameters
Dim = size(Y,1);
firstEig = 1;
lastEig = Dim;
interactivePCA = 'off';
verbose = 'on';
if ~exist('mpp','var') || isempty(mpp)
% Calculate PCA
options.ReducedDim = 0;
[mpp.eigv... |
710e88534114420d2c64e30ed9b28b0126afa1160ee8df10b836696c68761e57 | MATLAB | 1,703 | 64 | function [U, solver_output] = solveU(U0, V0, Ss, reg_l1, solver_options)
% solve U using non-negative l1 regularized regression.
solver = @pnopt_sparsa;
if nargin<5
solver_options = pnopt_optimset(...
'display' , 0 ,...
'maxfunEv' , 5000 ,...
'maxIter' , 500 ,...
'ftol' ... |
0eef66117992b01cfcafe0902f3477487d1e24fd8902b96da01b8abb822c42b4 | MATLAB | 1,704 | 46 | function demoCompactEditableComboBox
% demoCompactEditableComboBox Demonstrate CompactEditableComboBox.
%
% Put this file, CompactEditableComboBox.m,
% CompactEditableComboBoxEventData.m, and compactEditableComboBox.html in
% the same folder, add that folder to your MATLAB path, then run:
%
% demoCompactEditableCombo... |
6c73ce862538f97a49aecebd8f762127f7b24a68729f194df6f347004bfbc90e | MATLAB | 1,704 | 48 | function [EC,ec,degij] = edge_nei_overlap_bd(CIJ)
% EDGE_NEI_OVERLAP_BD Overlap amongst neighbors of two adjacent nodes
%
% [EC,ec,degij] = edge_nei_bd(CIJ);
%
% This function determines the neighbors of two nodes that are linked by
% an edge, and then computes their overlap. Connection matrix must be
% b... |
1aef0f4ee8a455d2ad1a38c37768d43aea149c99fa5b1eeeab0545ab1c7882a7 | MATLAB | 1,707 | 86 | function [ Sf, curve ] = jGA1(r, Ps, N, max_Iter, CR, MR)
fun = @jFitnessFunction1;
funop = str2func(r.evaldir);
dim = size(r.Y,2);
X = false(N,dim);
for i = 1:N
for d = 1:dim
if rand() > 0.5
X(i,d) = true;
end
end
end
fit = zeros(1,N);
fitG = inf;
for i = 1:N
fit(i) = fun(r , X(i,:), Ps );
... |
1f9f88b8976cbc2f9fe6f1303fd4c8418436b645f2f2626ceb724f47b5ca3479 | MATLAB | 1,711 | 62 | function [distance,branch] = breadth(CIJ,source)
%BREADTH Auxiliary function for breadthdist.m
%
% [distance,branch] = breadth(CIJ,source);
%
% Implementation of breadth-first search.
%
% Input: CIJ, binary (directed/undirected) connection matrix
% source, source vertex
%
% ... |
6c9b20ba8af79e400633f3bc9f99b8ac020dc50df2135292e7f305607990ae9c | MATLAB | 1,715 | 61 | function [t, wv] = LoadH5(varargin)
% MClust loading engine for simple h5 files with spikes data.
%
% Aug 2022
% Fernando Chaure
if nargin == 2
% New "get" construction"
if strcmp(varargin{1}, 'get')
switch (varargin{2})
case 'ExpectedExtension'
t = '.h5'; return;
... |
3dfdae3e5bed90cbd4b3697a61e6eb1ad2db3417731816bf6887607d76e9cd23 | MATLAB | 1,717 | 77 | % if there are multiple blocks, save the processed data for each block
% separately in its own folder
function saveROI(h)
proc.files = h.files;
proc.nframes = h.nframes;
proc.rootfolder = h.rootfolder;
proc.nX = h.nX;
proc.nY = h.nY;
proc.sc = h.sc;
proc.useGPU = h.useGPU;
proc.ROI = h.ROI;
proc.eROI = h.eROI;
proc.l... |
8d670b0647b65a05c6c9ac5236836163206bf288751917aa4689172c44aa8d0e | MATLAB | 1,717 | 55 | function [pValueTail, rev] = mbm_estimate_p_val_tail(null, observe, pThr)
% Calculates p-value (2 sides) by comparing the observed value and the distribution of the null samples.
%
%% Inputs:
% null - matrix (nxm) of null samples, where n is the number of null
% sample and m is the number of elements in... |
22b3d2681d5d6c1e8f859406575dfeed7ca4cc30c7393096ba08ef7f5b1805b1 | MATLAB | 1,721 | 46 | function output = load_seizure(subject_idx,electrode,window_length,fft_length)
% Generate a series of spectra from the seizure data
% 6, 10, 11, 13 are good examples
if nargin < 3 || isempty(electrode)
electrode = {'Cz'};
elseif ischar(electrode)
electrode = {electrode};
end
if strcmp(electrode{1},'all')
... |
36be2cf46203cbf64c250731fbb454ee66d1511749c2d05efa99692da2649776 | MATLAB | 1,721 | 88 | classdef ts
% ts object
%
% Rebuilt ADR 2011/12
% contains: T - a n x 1 sorted list of timestamps
%
% ts objects assume that
% -> T is stored in seconds
% ------> ts objects do NOT assume T is sorted in ascending order
%
% ts objects no longer accomodate units
% if you absolutely need units, create a subcl... |
79ac31a5e53b24949090440ab994df3687d149d2266189c0004a3f7dadd90c66 | MATLAB | 1,723 | 41 | function ms = msMeanFrame(ms, downsample)
%MSMEANFRAME Summary of this function goes here
% Detailed explanation goes here
meanFrame = cell(size(ms.alignmentROI,2),1);
minFrame = cell(size(ms.alignmentROI,2),1);
maxFrame = cell(size(ms.alignmentROI,2),1);
for ROINum=1:size(ms.alignmentROI,2)
... |
8587ee766f50a56f2831c3ff28d0500c24a8343e9626791c9a3840c5c4f829be | MATLAB | 1,725 | 41 | function T=transitivity_bd(A)
%TRANSITIVITY_BD Transitivity
%
% T = transitivity_bd(A);
%
% Transitivity is the ratio of 'triangles to triplets' in the network.
% (A classical version of the clustering coefficient).
%
% Input: A binary directed connection matrix
%
% Output: T transitiv... |
f65e951a8ff97848742803c3246cb3a383c1c2600154d943dc8f4a87f555edbb | MATLAB | 1,726 | 63 | function varargout = pnopt_curvtrack( x, d, t, f_old, dg_x, smoothF, nonsmoothF, ...
desc_param, xtol, maxIter )
% pnopt_curvtrack : Curve search for step that satisfies the Armijo condition
%
% $Revision: 0.8.0 $ $Date: 2012/12/01 $
%
% ------------ Initialize ------------
% Set line search parameters
beta ... |
322c4aa2e7180f16fcd991c8ed35fe83a2ea7c0988902d8ba574386ba996d027 | MATLAB | 1,729 | 64 | function [MATreordered,MATindices,MATcost] = reorderMAT(MAT,H,cost)
%REORDERMAT Reorder matrix for visualization
%
% [MATreordered,MATindices,MATcost] = reorderMAT(MAT,H,cost);
%
% This function reorders the connectivity matrix in order to place more
% edges closer to the diagonal. This often helps in dis... |
26e936d2e46dfb91cf922212225c661ec1a62d55594a90a68312637cf1bb5e15 | MATLAB | 1,733 | 47 | function est = mripy_est_from_GCM(GCM, norm)
% Extract estimates from a GCM object.
% est.A, est.B, est.C, est.PA, est.PB, est.PC
if nargin < 2
norm = false;
end
if norm % Ep./sqrt(Cp)
DCM = GCM{1,1};
index = [];
count = 0;
for x = 'abc'
idx = (1:numel(D... |
26ec02ac0625b664a6c5cf1da565a2dce6ff27676f1487d398970c453b8ec83c | MATLAB | 1,735 | 60 | function plotNemenyiTest(rankCl,CD,classifiers,saveFigName)
% plot the graph of the result of Nemenyi test, this function is usually
% used after the FriedmanTest function
% rankCl: column vector, the ranks of all classifiers
% CD: scalar, the critical difference
% saveFigName: string, the file name to be saved in the ... |
e6ad95d70fa4b333213227f550b0ccd70fc45d20293cb0c114c594c46d106f2e | MATLAB | 1,735 | 51 | function [ord all_ord ord_skip rev rev_skip] = cuepair_trialtypes(sessdir, TEfnm)
%CUEPAIR_TRIALTYPES sorts trials based on diffulty of presented cue pair.
% CUEPAIR_TRIALTYPES sorts trials into following groups based on cue pair:
% - ordered, i.e. numbers are in ascendent order: 12, 23 (level of conflict: lowest)
... |
64da9d78ec81974f3ec44cddbc736e0687a3b2ffb9efb123f84b7fcf9b18fc29 | MATLAB | 1,736 | 47 | function replaceStartleGeno(varargin)
p = inputParser;
p.addParameter('data_path','/gpfs/ysm/project/hoffman/ejh22/bioinfo/startle/data',@isfolder);
p.addParameter('geno_path','/gpfs/ysm/project/hoffman/ejh22/bioinfo/misc/corrected_genotype_10072019/VSR',@isfolder);
p.addParameter('rm',true);
p.addParameter('dryrun',tr... |
211f3edf9f31df370517a0a91b82e36f45d41f9e397acf59d8ea1d7c3c327422 | MATLAB | 1,740 | 90 | classdef eyeOccluder < optickaCore
%UNTITLED Summary of this class goes here
% Detailed explanation goes here
properties
verbose = true
address@cell = {'/dev/tty.usbmodemfa231','/dev/tty.usbmodem5d11'}
end
properties (SetAccess = private, GetAccess = public)
serialLink
isOpen = false
end
methods
... |
9d7d49a8e42fd09cb937491eee64ad7c68c125c5403c60749af2ea627dba3b0d | MATLAB | 1,741 | 58 | function inp = nk_GetAnalModalInfo_config(NM, inp)
global FUSION STACKING MODELDIR
if ~isfield(NM,'analysis'), inp=[]; return; end
if ~isfield(inp,'analind') || isempty(inp.analind)
t_act = 1; while t_act>0, [t_act, inp.analind] = nk_SelectAnalysis(NM, 0, 'MAIN INTERFACE >> SELECT ANALYSIS', 1, [], 0, 0); end
end
... |
9ceab50937800b4d2803f00869141b3f0defd8f22be863f495d90ee87dcfcf3b | MATLAB | 1,742 | 41 | classdef io
% a class for input and output functions
methods (Static)
function im_data = load_image(im_file)
% im_data = load_image(im_file)
% load an image from disk into Caffe-supported data format
% switch channels from RGB to BGR, make width the fastest dimension
% and conve... |
307674d63e2c595d320f70839000fc500e487b4919a0c31a5fb4fdb5efc6be0f | MATLAB | 1,745 | 48 | function [status, paramstr] = nk_GetNMStatus(NM)
status = struct( 'import_finished', false, ...
'setup_ok', false, ...
'analyses_exist', false, ...
'analyses_ready', false, ...
'analyses_completed', false, ...
'analy... |
232e03f0d941f510195e2f6d43c08f7915d4ca00ce82eedb071b1170460b918a | MATLAB | 1,746 | 30 | function PREPROC = nk_SetParamChain(paramfl, curclass, PREPROC)
if isfield(paramfl,'PREPROC') && isfield(paramfl,'PXfull') && ~isempty(paramfl.PXfull)
PREPROC = paramfl.PREPROC; %cnt = numel(paramfl.PREPROC.ACTPARAM); curstep = 0;
for y=1:size(paramfl.PXfull.cmd,1)
% Set ACTPARAM
if ~exist('PX'... |
b18426da028b94927a54e93d7523f68a6b3169fc3bd298de1b0d70d1ca93a914 | MATLAB | 1,746 | 47 | function T=transitivity_wd(W)
%TRANSITIVITY_WD Transitivity
%
% T = transitivity_wd(W);
%
% Transitivity is the ratio of 'triangles to triplets' in the network.
% (A classical version of the clustering coefficient).
%
% Input: W weighted directed connection matrix
%
% Output: T transit... |
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