sha256 stringlengths 64 64 | language stringclasses 28
values | size int32 1 491k | lines int32 1 23.2k | content stringlengths 1 200k |
|---|---|---|---|---|
cb08b5e9c0422f17307d7b3ff20f330574b69910eb43292c5b1022ea2bcf9185 | MATLAB | 1,125 | 37 | function S = FromParamsToSignal_RicianBiased(params, b, delta, smalldelta, sigma)
% params are the SANDI estimated model parameters, specifically:
%
% params(:,1) = fenurite
% params(:,2) = fsoma
% params(:,3) = Din in um2/ms
% params(:,4) = Rsoma in um
% params(:,5) = De in um2/ms
%
% b: the b value, in ms/um2
% delt... |
731a50be2aab53acfca0a04d2536f8f953c34f259ea5a5a2be8555dae5df8204 | MATLAB | 1,127 | 35 | %CountInIntervals - Count samples that fall in each of a list of intervals.
%
% The equivalent Matlab code is trivial
%
% for i = 1:length(intervals),
% j = find(values>=intervals(i,1)&values<=intervals(i,2));
% counts(i) = length(j);
% end
%
% but becomes extremely slow when dealing with very... |
9c0b92aa0e986312e061663d4bcd5e372e28788ea9a9751dae52eb8e21d64b94 | MATLAB | 1,127 | 37 | function tree = flush(tree,uid)
% XMLTREE/FLUSH Flush (Clear a subtree given its UID)
%
% tree - XMLTree object
% uid - array of UID's of subtrees to be cleared
% Default is root
%
% Clear a subtree given its UID (remove all the leaves of the tree)
% The tree parameter must be in input AND in ou... |
d7cc5834bf3c6ce0ea7d519d80fc7bf5ec550377e79c45fea79bfbc8df1b911f | MATLAB | 1,127 | 43 | function ftData = danalyzer2fieldtrip(psg)
% Convert a danalyzer psg struct to a FieldTrip 'raw' structure.
% Currently does not support conversion of electrode
%%
% Authors: Dan Denis
% Date: 2023-12-12
%%
% Electrode positions
if ~isempty(psg.chans)
ftData.elec.elecpos = zeros(length( psg.chans ), 3);
f... |
666d2b9e48142747ca8aa35cac0a83d49a23fbf41f18ae89efb117a7560ba2c5 | MATLAB | 1,128 | 26 | function [f,findx]=getfgrid(Fs,nfft,fpass)
% Helper function that gets the frequency grid associated with a given fft based computation
% Called by spectral estimation routines to generate the frequency axes
% Usage: [f,findx]=getfgrid(Fs,nfft,fpass)
% Inputs:
% Fs (sampling frequency associated with the d... |
7a68fe631a43a80d58aeec4a5cc09c3ae334001b9c43f2d4008271c352a5c459 | MATLAB | 1,130 | 29 |
function [ephysProperties, unitClassif] = runAllEphysProperties(ephysPath, savePath, rerunEP, region)
%% compute ephys properties
ephysPropertiesExist = dir(fullfile(savePath, 'templates._bc_ephysProperties.parquet'));
if isempty(ephysPropertiesExist) || rerunEP
paramEP = bc.ep.ephysPropValues;
[spikeTimes... |
96bc88f8cb66927f54a3e2fa40a7f22a0466fde118666da83e2cc7116e436c5c | MATLAB | 1,130 | 33 | function [event] = PL2EventTsBySource(filename, source, channelInSource)
% PL2EventTsBySource(filename, source, channelInSource): read event timestamps from a .pl2 file
%
% [event] = PL2EventTs(filename, source, channelInSource)
% [event] = PL2EventTs(filename, "KBD', 1)
% [event] = PL2Event... |
0bbd2686534282aec4db00f415be9adbcf6f5ff55d98e901cb9732666e9bf002 | MATLAB | 1,132 | 39 | % Section 7.1.1: Covariance estimation for Gaussian variables
% Boyd & Vandenberghe "Convex Optimization"
% Joëlle Skaf - 04/24/08
%
% Suppose y \in\reals^n is a Gaussian random variable with zero mean and
% covariance matrix R = \Expect(yy^T). We want to estimate the covariance
% matrix R based on N independent s... |
0c1826fecc9816f288001573150b4b8675e6fa18e92620dc1e0358bc643dd647 | MATLAB | 1,132 | 41 | function [major,minor,patchnum,extra]=iso2meshver
%
% [major,minor,patchnum,extra]=iso2meshver
% or
% v=iso2meshver
%
% get the version number of iso2mesh toolbox
%
% author: Qianqian Fang, <q.fang at neu.edu>
%
% output:
% if you ask for a single output:
% v: a string denotes the current version number; t... |
406f927e7b2e7ae96c4be7fdd886c4e423490f3dffec5fa7cb461f7b91e6e288 | MATLAB | 1,132 | 47 | function [returnVar,msg] = RemoveDCfromDat_AllDat(varargin)
% USAGE:
% RemoveDCfromDat_AllDat(fbasename)
%
% removes DC offset in all channels from all dat files starting with
% 'fbasename'. Assumes that there is at least one xml file associated to
% one the dat file (must be created before with Neuroscope... |
adcf19be4625f365c6653fc08ded183183d3574f05594bf989c272a2121e5157 | MATLAB | 1,132 | 27 | function Z = CORE_histxy(c,r,cmax,rmax)
%CORE_HISTXY Core computational routine for HISTXY.
% Z = CORE_HISTXY(C,R,CMAX,RMAX) returns an RMAX x CMAX matrix Z such
% that Z(i,j) = #[R(a)=i,C(b)=j].
%
% CONDITIONS
% ----------
% R and C must be column vectors of the same length.
% R and C must only conta... |
f108f5ea546a10f2d92135b3eb554f8ee3b8e4dec4951c623fa50850d155c74a | MATLAB | 1,132 | 30 |
function [dip, p_value, xlow,xup]=hartigansdipsigniftest(xpdf,nboot)
% function [dip,p_value,xlow,xup]=HartigansDipSignifTest(xpdf,nboot)
%
% calculates Hartigan's DIP statistic and its significance for the empirical p.d.f XPDF (vector of sample values)
% This routine calls the matlab routine 'HartigansDipT... |
f2a987295e7b4ff8df0d60c4f6ef1393d1b30ca253db787ed20aaeb1c485484c | MATLAB | 1,132 | 40 | function [Pr, prMax] = placeBayes(Cr, rateMap, binLength)
%function out = placeBayes1(Cr, rateMap, binLength)
% Inputs:
% Cr = [nTemporalBin X nCell] matrix of binned firing rates
% rateMap = [nSpatialBin X nCell] firing rate 'template'
% binLength = scalar of the duration of the bins in 'Cr'
% Outputs:
% Pr = [nTempor... |
006c800aaeca777703919ff8914376b5e215d849a0eccd6b07eb5ec970c6787f | MATLAB | 1,133 | 29 | function I = mat2cell_ov(X,xx_s,xx_f,yy_s,yy_f,zz_s,zz_f,overlap,sz)
% converts a matrix into a cell array with overlapping elements
% INPUTS:
% X: Input matrix
% grid_size: size of each element without overlap
% overlap: amount of overlap
% sz: spatial size of X
% OUTPUT:
% I: ... |
0dfdadde167b22729f931aa6861f50ce62b27fc1d11066a7f7751f7d3bf706f8 | MATLAB | 1,134 | 37 | % Minimal phase spectral factorization
%
% A PSD matrix is found which minimizes a weighted trace while obtaining
% fixed sums along the diagonals. Notice the use of a FOR loop to access
% the diagonals of X. A later version of CVX will eliminate the need for
% this by allowing the use of the SPDIAGS function in side m... |
7c05ffff9394cc3581b30aec35976dffaa8f86fe927a2a6b6e16470b849065fc | MATLAB | 1,134 | 55 | function [y,ff]=myfilter(x,ncu,dd)
% Usage ... y=myfilter2(x,ncu_or_fco,ts)
% or ... y=myfilter2(x,filt_fd)
xft=fft2(x);
if prod(double(size(ncu)==size(x)))==1,
disp(' Simple filtering...');
ncu=fftshift(ncu);
yft_m=abs(xft).*abs(ncu);
yft_a=angle(xft)-angle(ncu);
y=ifft2(yft_m.*exp(i*yft_a... |
d04fc13eacd8b825511df73ccdf278b38913660828318897c479465ab1aa21b5 | MATLAB | 1,134 | 40 | function [x,varargout] = ZeroToOne(x,varargin)
%ZeroToOne - Normalize values in [0,1].
%
% USAGE
%
% [y,b0,b1...] = ZeroToOne(x,a0,a1,...)
%
% x array to normalize (vector OR matrix)
% a0... additional inputs to transform using the same
% scale as x
% Copyright (C) 20... |
e913d24a177b41eaf7b088dd78e802594757d76945a7bfaf735c8e8a0cf2a527 | MATLAB | 1,134 | 42 | clear;
clc;
close all;
addpath(genpath('../functions/'));
SUBINFO_FILE = '../../subInfo/rid_sex_mDoB_yDoB_mExam_yExam_ageExam_dx_icv_bl.csv';
GMICV_FILE = '../../vbm_810bl/gmVolAndICV/rid_gmVol_icv_bl.csv';
K = 3;
%------- Which quantity? - Q
% 2 for MEM, 3 for EF
Q = 2;
% Requirement for x-axis: auto, auto-center... |
a4d6cd4ecf7cf3caf0da224be96c0a6b8cbe2636d51a1fea1279cb3c512e7406 | MATLAB | 1,135 | 30 |
function [dip, p_value, xlow,xup]=hartigansdipsigniftest_ss(xpdf,nboot)
% function [dip,p_value,xlow,xup]=HartigansDipSignifTest(xpdf,nboot)
%
% calculates Hartigan's DIP statistic and its significance for the empirical p.d.f XPDF (vector of sample values)
% This routine calls the matlab routine 'HartigansD... |
bd7d22609e163e4e7f9111fe92c84225d4470d196b1a24f8cb8e91fa32654dfc | MATLAB | 1,135 | 36 | function [channelNumber] = plx_ad_resolve_chennel(filename, channel)
% plx_ad_resolve_chennel(filename, channel): returns .plx file raw a/d channel number for the specified channel name
%
% [channelNumber] = plx_ad_resolve_chennel(filename, channel)
%
% INPUT:
% filename - .plx file name
% channel - 0-based ... |
933bcc50abcc017b7b6fcddf4ee48085b32e442ab4160d4a7301a084ebfd1db7 | MATLAB | 1,136 | 49 | function cvx_optval = det_rootn( X )
%DET_ROOTN Internal cvx version.
narginchk(1,1);
n = size( X, 1 );
if ndims( X ) > 2, %#ok
error( 'N-D arrays are not supported.' );
elseif size( X, 2 ) ~= n,
error( 'Matrix must be square.' );
elseif nnz( X ) <= n && nnz( diag( X ) ) == nnz( X ),
... |
67e412b2806846a6cc785edb51715bcb0f5147cb8040839be16ff658cc4aac2d | MATLAB | 1,137 | 39 | function [cbar, clims] = smart_colorbar(clims, cmap_style)
% SMART_COLORBAR - Generates a colorbar for mapping holes in data
%
% Finds the proper value for null data points to be plotted as white in an
% IMAGESC plot, or similar.
%
% [CBAR,CLIMS] = SMART_COLORBAR(CLIMS, CMAP_STYLE)
%
% ARGUMENTS
% * CLIMS: Th... |
0e8c587ac0916b56d881a045581cb0ac32d7fcba577c7475162ad8ea6b846611 | MATLAB | 1,138 | 43 | function dcor = distcorr(x,y)
% This function calculates the distance correlation between x and y.
% Reference: http://en.wikipedia.org/wiki/Distance_correlation
% Date: 18 Jan, 2013
% Author: Shen Liu (shen.liu@hotmail.com.au)
% Check if the sizes of the inputs match
if size(x,1) ~= size(y,1);
error('Inputs mus... |
60ec60c563d5431cba68e7a29b0c09f64408b1a29cf6005de7beb1d70c0288c4 | MATLAB | 1,138 | 34 | function LaBGAScore_clean_sourcedata(path_to_superdataset)
%
% cleans sourcedata subdataset depending on whether DICOMs are gitignored
% or not
%
% see
%
% OPTIONAL INPUT
% path_to_superdataset : absolute or relative path to superdataset
% if not specified, present working directory is used
%
% AUTHOR
% Lukas Van Oude... |
9887665f034c0d537a1c91a8e43a458bdd96a2ed447eb923bff2d03d7434251f | MATLAB | 1,138 | 44 | function plotSlipTraces(i,data,typerange,figtitle,Ylimits,colorset)
% This takes the dF/F calculated data from calc_dFF() and plots the mean
% (bold) and the individual traces (thin dashed lines) for each trial type
% in the dataset. figtitle should reflect the dataset you're plotting.
% typerange is the range of... |
469d13d95c442c24d0050a6af3887d894ddfb0c3031dfb8a76e4016484fa03f4 | MATLAB | 1,139 | 33 | function copydata2target(PGout,ROIdirs,IMGdirs,namelist)
for i = 1:length(namelist)
[pth1 fil1 ext1] = fileparts(IMGdirs{i});
[pth2 fil2 ext2] = fileparts(ROIdirs{i});
Outdirs = [PGout,filesep,namelist{i},filesep];
mkdir(Outdirs);
if strcmp(ext1,'.nii')
copyfile(IMGdirs{i},[Outdirs,'image.ni... |
91cfe845c553796c5f65cce86c079e931200116ae0fcd98fcc413ee7d8ce9dcf | MATLAB | 1,139 | 41 | function [mintime, maxtime]=minmaxsptimes(data)
% Find the minimum and maximum of the spike times in each channel
% Usage: [mintime, maxtime]=minmaxsptimes(data)
% Input:
% data (spike times as a structural array of multiple dimensions e.g. channels; channels x trials;
% can also accept a 1d matrix of spike ti... |
b86074fbf3d39e3e46b44733fbcabfa1c00edde58cdc0d1875d69f56abd7cf08 | MATLAB | 1,140 | 10 | %Graphic interface builder functions (guifunc folder):
% <a href="matlab:helpwin errordlg2">errordlg2</a> - Makes a popup dialog box with the specified message and (optional)...
% <a href="matlab:helpwin finputcheck">finputcheck</a> - Check Matlab function {'key','value'} input argument pairs...
%... |
cdb6f8d697270108cd6901acb2814a4129dcbc7345320b75b700033dff159abe | MATLAB | 1,140 | 49 | function vol=thinbinvol(vol,layer,nobd)
%
% vol=thinbinvol(vol,layer,nobd)
%
% thinning a binary volume by a given pixel width
% this is similar to bwmorph(vol,'thin',n) except
% this does it in 3d and only run thinning for
% non-zero elements (and hopefully faster)
%
% author: Qianqian Fang, <q.fang at neu.edu>
%
% ... |
4644915345dc35afafbabdab165fbb22b8c4de5ff3bb3db5f071de91f0082ca8 | MATLAB | 1,141 | 47 | function [vertices, edges] = line_pieces(vertices_all, piece_size, dashratio)
%
% See also u3d_pre_line, u3d_pre_contourgroup.
%
% File: line_pieces.m
% Author: Ioannis Filippidis, jfilippidis@gmail.com
% Date: 2012.06.10 -
% Language: MATLAB R2012a
% Purpose: generate vertices and edge arrays ... |
d0237433df89293f8890e309b90b0a2c25898eb29484afcd39bdd50278e7a6e8 | MATLAB | 1,142 | 30 | function [avgfluor,stdfluor]= avgROIs(fluordata)
%I think the first frame should basically always be skipped?
avgfluor={};
stdfluor={};
for k=1:15 %for each of the fifteen trial types
fn=fieldnames(fluordata);
[ROInum,triallength]=size(fluordata.(fn{1}));
dirROIs=[];
for kk=1:ROInum% for ... |
820995e4535fe811340d4b7a76370acc63ba0bf20ccf9dae210367a487d78b18 | MATLAB | 1,143 | 52 | function [m,ssq] = issq(x,n,m0,ssq0)
% Increment the mean and the sum of squares after a new
% observation is included in the sample.
% To obtain the variance, divide the ssq by n or by n-1.
%
% Usage:
% [m,ssq] = issq(x,n,m0,ssq0)
%
% Inputs:
% x = New observation
% n = Observation sequential number (n > 1)
% m0... |
da77bc390c7fa90b616f10839f8e5f8a0e6cafbae85767d27025283f0cdd5917 | MATLAB | 1,143 | 37 | %%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
% Merge multiple surfaces and remove self-intersection elements
%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
% generate a mesh for
load rat_head.mat
[node0,face0]=v2s(volimage,0.5,2);
c0=mean(meshcentroid(node0... |
dd2c2389a4b810dcb46cf33de591661ebdd27a8ffc337278e8edb5500e6fc975 | MATLAB | 1,143 | 33 | function edges=meshedge(elem,varargin)
%
% edges=meshedge(elem,opt)
%
% return all edges in a surface or volumetric mesh
%
% author: Qianqian Fang, <q.fang at neu.edu>
% date: 2011/02/26
%
% input:
% elem: element table of a mesh (support N-d space element)
% opt: optional input, giving the additional options. I... |
c61a90f99a2fe11957428af063af72747f1be69ee5af9a5e395d6bf38e371180 | MATLAB | 1,144 | 30 | function I = palm_perm2idx(P)
% Convert a permutation matrix into
% a set of indices.
% _____________________________________
% Anderson Winkler
% FMRIB / University of Oxford
% Feb/2012
% http://brainder.org
% - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -
% PALM -- Permutation Analysis of Li... |
f8cef654ad99c9423de74d76ed4bfe9741927761edee49e7a4a68c4d9940bb47 | MATLAB | 1,144 | 27 | function X = cell2mat_ov(I,xx_s,xx_f,yy_s,yy_f,zz_s,zz_f,overlap,sz)
% converts a cell array to a matrix when the cell elements overlap
% INPUTS:
% I: cell array
% grid_size: true size of each element
% overlap: amount of overlap in each direction
% d1: number of rows of matrix
% d... |
37c09768e41b25dc4e290a30ddbcb45e1e2a0db428756e6cc55cc436ce714d04 | MATLAB | 1,145 | 30 | function [usevat,dimensionality,currentseed,sides]=ea_checkvatselection(handles)
% small helper function that will check whether left, right or both vat
% checkboxes are true.
if (get(handles.rvatcheck,'Value') && strcmp(get(handles.rvatcheck,'Enable'),'on')) && ...
(get(handles.lvatcheck,'Value') && strcmp(ge... |
049a8fee2dad4421249b643191e3ef0fa3d88a5113b84ca8733b0ae92ef591f6 | MATLAB | 1,146 | 33 | function worked = seek(vr,fnum)
%WORKED=SEEK(VR,FNUM)
% Attempts to go to frame number FNUM in video VR. Returns 0 if the user
% attempts to seek past the end of the video. For most video plugins, the
% first frame is 0 (not 1), thus in the following example, both IM1 and
% IM2 should be the same for most plugins... |
2462f4a6d91feea023179af6bd932c8ee6856d72f00a1fafc9a8cdbfd2b9dbdc | MATLAB | 1,146 | 42 | clear;
clc;
close all;
addpath(genpath('../functions/'));
SUBINFO_FILE = '../../subInfo/rid_sex_mDoB_yDoB_mExam_yExam_ageExam_dx_icv_bl.csv';
GMICV_FILE = '../../vbm_810bl/gmVolAndICV/rid_gmVol_icv_bl.csv';
K = 3;
%------- Which quantity? - Q
% 1 for MMSE, 2 for MEM, 3 for EF
Q = 2;
% Requirement for x-axis: auto,... |
0df965803b19299c1d8549e4f6e67e124894cc16468721f983789df59587e77a | MATLAB | 1,147 | 28 | clc
clear
% Navigate to the target folder containing all .h5 files
ds = imageDatastore(pwd, "IncludeSubfolders", true, 'FileExtensions', '.h5');
dsFiles = ds.Files;
for di = 1:length(dsFiles)
tarFile = dsFiles{di};
% Load h5 file info and data
info = h5info(tarFile);
data_PiezoMonitor = h5read(tarFil... |
163fff474f2ef714564f2fabed6dcda6f06365f85d1210f327d8284595513a08 | MATLAB | 1,147 | 43 | function [Efield] = ea_get_efield(perc,standard_efield,amp,conductivity,amp_mode,impedence)
% inputs:
% percentage on each contact
% standard_efield: the standard efield is provided in the resources folder
% of the fastfield
% amp: stimulation amplitude
% Electrode_type: the name of the stimulation electrode
% conducti... |
b24501616b04b2df8e889716b0835ca9ce908a79f361d954f050a43de566b8f8 | MATLAB | 1,147 | 21 | function out = check_log_rec_v2(monkey,date,datadir,block_number,instances,hubs,stimbit,log_prefix)
disp(['%%%%% Block: ',num2str(block_number)]);
for instance_idx = instances
for hub_idx = hubs
instance_name = ['\Hub',num2str(hub_idx),'-instance',num2str(instance_idx),'_B',sprintf('%03.0f', block_num... |
4ada56105e758edfaa863d969c4a785e876620644b67dbe6d55d8253501a6228 | MATLAB | 1,148 | 48 | function peaks = fun_spectral_peaks(data, freqs, peakRange)
% Peak detection in a power spectrum
% Required inputs:
%
% data: A frequency x channel power spectrum (e.g. from the output of
% fun_spectral_power)
%
% freqs: Array of spectral power frequencies (must match first dimension of
% data
%
% peakRange: [min max]... |
d5c62101977683dfea24589c59b8effadc1068b9db2fe46da11f51bac32ccafb | MATLAB | 1,148 | 35 | function result = attenuateBordersGBVS(data,borderSize)
% attentuateBorders - linearly attentuates the border of data.
%
% result = attenuateBorders(data,borderSize)
% linearly attenuates a border region of borderSize
% on all sides of the 2d data array
% This file is part of the SaliencyToolbox - Copyright (C) 20... |
1070c69f63a8a06f761e7a6a3d7f075a057b287998a291490710cbb912252f52 | MATLAB | 1,149 | 36 | function [w,rho] = max_deg(A)
% Computes the maximum-degree heuristic edge weights
%
% [W,RHO] = MAX_DEG(A) gives a vector of maximum-degree edge weights for a
% graph described by the incidence matrix A (NxM). N is the number of
% nodes, and M is the number of edges. Each column of A has exactly one +1
% and one -1. ... |
a1c46bf07e4e72400b129b9ddc5350b172ad0c305f6b37aff78d612ab872a114 | MATLAB | 1,149 | 37 | % Plot a polar plot of an antenna array sensitivity
% with lines denoting the target direction and beamwidth.
% This is a helper function used in the broadband antenna examples.
%
% Inputs:
% X: an array of abs(y(theta)) where y is the antenna array pattern
% theta0: target direction
% bw: total beamw... |
8f3e41a8b1d969707895ea591247edc7ad4fb3edb87739e55d86ccc2ea48b5f3 | MATLAB | 1,150 | 54 | function plotMetricPDFSubpops(allROIs, metricField, minmax, kdeBW)
% Creates KDE plots for metric value distributions separated by subpops
if nargin < 5
minmax = [];
end
if nargin < 6
kdeBW = [];
end
% Colormap
cmap = cmapSubpops();
% Create figure
fig;
hA = gca;
hold on;
% Get data
values = cat(1, allROIs... |
83ea7a325041852c7a5f2f306deb7699d1513b4865ff359abbe4fea5da0d21f1 | MATLAB | 1,152 | 25 | function cifti = cifti_struct_create_sdseries(data, varargin)
%function cifti = cifti_struct_create_sdseries(data, ...)
% Construct an sdseries cifti struct around the 2D data matrix.
%
% To control the contents of the scalar and series diminfo, use 'start',
% 'step', 'unit', 'namelist', and '... |
ae3405ed388e07b7939ae247669d4818f5020ae9e6526da1bd53550825dc1dc3 | MATLAB | 1,153 | 48 | function writestreamstring3( WS , WO , ncharsperline , maxlines , fid , c , z , proba , focustopics , thr );
if (nargin<4)
error( 'Not enough arguments' );
end
L = [];
N = length( WS );
NL = 0;
for i=1:N
if (WS( i ) == 0)
L = [ L '. ' ];
spanst = 'normal';
word = ... |
d33f3b1521e367a4cb955d090ec5be5950bbc7d5a4fd6afc1061c9aa7cc4ef12 | MATLAB | 1,153 | 42 | % Exercise 4.47: Maximum determinant PSD matrix completion
% Boyd & Vandenberghe "Convex Optimization"
% Almir Mutapcic - Jan 2006
%
% Given a symmetric matrix A in R^(n-by-n) with some entries unspecified
% we find its completion such that A is positive semidefinite and
% it has a maximum determinant out of all possib... |
d7ad8750183666a4e994fc10af88cbb40027b0cf654c50909e7f4384f4bac7c1 | MATLAB | 1,153 | 25 |
rr1a_percentmeansC=[];
rr1a_percentmeans=[];
rr1a_percentmeansSM=[];
rr1a_percentsemC=[];
rr1a_percentsem=[];
rr1a_percentsemSM=[];
figure;
bar([nanmean(rr1a_percentmeansC) nanmean(rr1a_percentmeans) nanmean(rr1a_percentmeansSM)])
hold on
errorbar([nanmean(rr1a_percentmeansC) nanmean(rr1a_percentmeans) nanmean(rr1a_p... |
33f071567f8a3bee1892a212a177476801c6697a1af1a2740bda9da49c392d73 | MATLAB | 1,154 | 35 | function [aL aR] = alignDataSines(allflies,types,frame)
% first, load 'allflies' data, e.g. 'SS52244_exp1_5_n7.mat'
for type = types
L = []; R = [];
B = allflies([allflies.trtype]==type);
for tr = 1:length(B)
% Ldata = B(tr).dFFfluor(3:10,frame);
% Rdata = B(tr).dFFfluor(11:18,fra... |
6518a0bb9fefce4213b508b81ce88c79fe016ac6672dd9ba7d2f07f3c5145cd8 | MATLAB | 1,154 | 40 | %islmatrix - Test if parameter is a logical matrix (>= 2 columns).
%
% USAGE
%
% test = islmatrix(x)
%
% x parameter to test
%
% NOTE
%
% To be considered logical, the matrix should contain only values 0 and 1, but it
% does not need to actually be of class 'logical' (class(x) could be e.g. '... |
a241a545f67e00fb7af2a8829bb5ecb6d87df65f0dfa06f30d098bae59982efa | MATLAB | 1,154 | 47 | function [mu, sigma] = medianIQR_to_meanSD(medianVal, IQR, n)
% medianIQR_to_meanSD
%
% Approximate mean and standard deviation from median and IQR.
%
% INPUTS
% medianVal : median
% IQR : interquartile range (Q3 - Q1)
% n : sample size (optional but recommended)
%
% OUTPUTS
% mu : estimate... |
0b2efbbfb1c74680c43d8e69b89d6c1e82c876c9e743e5625527d58b47ff4fda | MATLAB | 1,155 | 40 | % Euclidean projection on a rectangle
% Section 8.1.1, Boyd & Vandenberghe "Convex Optimization"
% Joelle Skaf - 10/07/05
%
% The projection of x0 on a rectangle C = {x | l <= x <= u} is given by
% minimize || x - x0 ||^2
% s.t. l <= x <= u
% It is also given by P_C(x0)_k = l_k if x0_k... |
30401303ec773ff6ba42b722c9d7f951438d2e1fd52e24c6a8bed70a3386bb17 | MATLAB | 1,155 | 27 | function GCO_SetVerbosity(Handle,Level)
% GCO_SetVerbosity Print status messages during Expansion/Swap.
% Level 0 prints no output (full speed).
% Level 1 prints cycle-level status messages.
% Level 2 prints expansion/swap-level status messages.
% The current energy is printed as
% E=Total (E=Dat... |
d58845981439b1623bbea9715c5330f72179c3a266fcff914aa547a4a5512632 | MATLAB | 1,155 | 38 | function channels = GetChannels(groups)
%GetChannels - Get list of channels for one or more spike groups.
%
% USAGE
%
% channels = GetChannels(groups)
%
% group one or more optional electrode groups (default = all groups)
%
% EXAMPLES
%
% all = GetChannels; % list all channels
% channe... |
eec050164af9066847a49f2345d5512c0ddc76c9df271afd7caea264061238d0 | MATLAB | 1,155 | 46 | function hdi = calc_HDI(samples, q)
% function hdi = calc_HDI(samples, q)
%
% Calculates highest-density interval on chain of MCMC samples
% See Kruschke (2015) Doing Bayesian Data Analysis
%
% INPUTS
%
% samples - vector of MCMC samples
% q - credible mass, scalar between 0 and 1, default is 0.95
% for 95% HDI
%
% Bas... |
0446add7a26f59442cae899e46e1dabb95f4f9296ff8eb5dc6788b3bd31393de | MATLAB | 1,156 | 40 | function watsonsu2 = HDWatsonsU2(self, cel)
% Returns U2 head tuning score for current cell
%
% watsonsu2: Watson's U^2 test for uniformity in circular data. See
% redish,
% hippocampus 2005 to learn how it applies to head direction cells
% see
% http://www.ncbi.nlm.nih.gov/pmc/articles/mid/NIHMS71281/table/T2/
% for ... |
183c083f47925c736cf463b7c87c5ba0a7a45da8ed3419cb7313efc028fcb70d | MATLAB | 1,156 | 35 | function data=createdatamatpt(data,E,win)
% Helper function to create an event triggered matrix from a single
% channel of spike times.
% Usage: data=createdatamatpt(data,E,win)
% Inputs:
% data (input spike times as a structural array or as a column vector) - required
% E (events to use as triggers) - r... |
ec4626a844da8f5f68bc12b921ddd699b0ff3fe6e32365896ce356be484d8ac8 | MATLAB | 1,156 | 37 | function [newnode,newelem]=highordertet(node,elem,order)
%
% [newnode,newelem]=highordertet(node,elem)
%
% generate high-order straight-edge tetrahedral mesh from
% the 1st order tetrahedral mesh
%
% author: Qianqian Fang, <q.fang at neu.edu>
%
% input:
% node: list of nodes
% elem: list of elements (each row are... |
8827bc755bb021be263407915b73cf616637f28f4a4f02fb739480c38323df11 | MATLAB | 1,157 | 18 | function cifti_write_sdseries(data, filename, varargin)
%function cifti_write_sdseries(data, filename, ...)
% Write a new sdseries cifti file from a 2D data matrix.
%
% The cifti extension on the filename should always be '.sdseries.nii'.
%
% To control the contents of the scalar and serie... |
2bb5048dfb7006ae341587bfe6e3a58aa1e0acc2a04fffec13844d6dbef6cff1 | MATLAB | 1,158 | 41 | function smoothedVals = irregularGaussianSmooth(X, vals, sd)
% smoothedVals = irregularGaussianSmooth(X, vals, sd)
%
% Apply Gaussian smoothing to an irregularly sampled set of points. Point
% coordinates X should be nPts x nSpatialDimensions. vals should be
% nPts x nValueDimensions. sd is the standard deviation of ... |
23ef35282ba69a83752e9386841826a68694330b6ab46e9bcce7d0d792e01e8f | MATLAB | 1,159 | 30 | % Plot the spent time
time_table = readmatrix('TimeCount0.xlsx','Sheet',3);
% time_table = time_table/ans;
feature_number = 10:10:100;
figure
plot(feature_number,time_table(1,:)*100,'LineWidth',1.5,'Color','k','LineStyle','-','Marker','s')
hold on
plot(feature_number,time_table(2,:)*100,'LineWidth',1.5,'Color','k','Lin... |
d9f1bbaff3b2535b3f55ba0f34b6ff7d42ba6020662be562ff958ec244959962 | MATLAB | 1,159 | 39 | % fastif() - fast if function.
%
% Usage:
% >> res = fastif(test, s1, s2);
%
% Input:
% test - logical test with result 0 or 1
% s1 - result if 1
% s2 - result if 0
%
% Output:
% res - s1 or s2 depending on the value of the test
%
% Author: Arnaud Delorme, CNL / Salk Institute, 2001
% Copyright (... |
2c07cc66eb3f5abd5567369b68bb0d28a0d8245f3245772fdc7f93b94cc23a50 | MATLAB | 1,160 | 31 | function azimuth = itd2azimuth(itd,f)
%ITD2AZIMUTH Convert ITD to azimuth
%
% AZIMUTH = IOSR.AUDITORY.ITD2AZIMUTH(ITD,F) converts the interaural time
% difference ITD (in seconds) at frequency F (in Hz) to AZIMUTH (in
% degrees) according to Kuhn's model [1].
%
% References
%
% [1] Kuhn, G.F. (1977), Model ... |
538d5235d5ff5695da271c82460785de6b172dc9bbc388fa1c50a54148a978e8 | MATLAB | 1,160 | 38 | function [channelNumber] = plx_event_resolve_channel(filename, channel)
% plx_event_resolve_channel(filename, channel): returns .plx file event channel number for the specified channel name
%
% [channelNumber] = plx_event_resolve_channel(filename, channel)
%
% INPUT:
% filename - if empty string, will use File ... |
d693d82ce46883f19525b6833bce3de5a4ca82c30ec65d396318a2da5955115a | MATLAB | 1,160 | 28 | function [wave] = PL2Waves(filename, channel, unit)
% PL2Waves( filename, channel, unit ): read spike timestamps and waveforms from a .pl2 file
% returns waveform values in millivolts
%
% wave = PL2Waves( filename, channel, unit )
% wave = PL2Waves( filename, 'SPK01', 1 );
% wave = PL2Waves( filena... |
f2609dfe19c27b03672d4f2b6cd599ef2d25f26c13c21f0a3c1c11f650a06cc6 | MATLAB | 1,160 | 33 | function ea_checkDocker(image)
% Function to check docker installation [and docker image].
% If docker is installed, the specified image will be pulled.
arguments
image {mustBeTextScalar} = ''
end
% First check docker installation
dockerPath = ea_findBinPath('docker');
if isempty(dockerPath)
if ismac
... |
093666a9005f8eccd236011c24b3bef768468bb615c31cc39552ccf9ffca3e6d | MATLAB | 1,161 | 26 | % display() - display an EEG data class underlying structure
%
% Author: Arnaud Delorme, SCCN, INC, UCSD, Nov. 2008
% Copyright (C) 2008 Arnaud Delorme, SCCN, INC, UCSD
%
% 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 ... |
cd47e62d906ef95f1dae02090baedccaf0aabbc7cf538ec4647c808d4a063247 | MATLAB | 1,161 | 47 | function mask=flatsegment(node,edge)
%
% mask=flatsegment(node,edge)
%
% decompose edge loops into flat segments alone arbitrary planes of the bounding box
%
% author: Qianqian Fang, <q.fang at neu.edu>
% date: 2008/04/08
%
% this code is fragile: it can not handle curves with many co-linear
% nodes near the corner poi... |
f9c00fa5cbe9d8b6058696c00757b42ae0d7335e8ba99829df93da166ed69e9d | MATLAB | 1,161 | 41 | function SurfStatWriteData( filename, data, ab )
%Writes data (e.g. thickness) to a single .txt or FreeSurfer file.
%
% Usage: SurfStatWriteData( filename, data [, ab] );
%
% filename = .txt or FS file name, either new version binary or ASCII.
% ab = 'a' for ASCII or 'b' for binary.
%
% data = k x v matrix of... |
53d5063b828ab325a36834e9543c08f204856f5b8edfb10bcedeb03a5a016a99 | MATLAB | 1,162 | 46 | function [f maxsize]=maxsurf(facecell,node)
%
% [f maxsize]=maxsurf(facecell,node)
%
% return the surface with the maximum element number or
% total area from a cell arry of surfaces
%
% author: Qianqian Fang, <q.fang at neu.edu>
%
% input:
% facecell: a cell array, each element is a face array
% node: optional... |
18180476ac568e6a42997c912ca31d1deba0c3e79705da482ba5dfdd0a7649da | MATLAB | 1,163 | 40 | function varargout = DefaultArgs_ss(Args, DefArgs)
% auxillary function to replace argument check in the beginning and def. args assigment
% sets the absent or empty values of the Args (cell array, usually varargin)
% to their default values from the cell array DefArgs.
% Output should contain the actuall names of arg... |
44e1820fa804f1bdb463640f77dabaf26f53b2b191dddd4277707f00a5213a90 | MATLAB | 1,163 | 26 | function phi = rad2deg(phi)
%RAD2DEG returns the given angle in degree
% phi = rad2deg(phi) converts the angle phi given in radians to degree
%
% Input options:
% phi - angle, can be a scalar or matrix (rad)
%
% Output options:
% phi - angle (degree)
%
% See also: deg2rad
% SOFA... |
bc899855ba4ffa173ca5b960de7c125e98e4ebe7dc087b1d4224d5e3f7b01251 | MATLAB | 1,163 | 56 | function element_node = gmsh_mesh2d_element_data_example ( element_num, ...
element_order )
%*****************************************************************************80
%
%% GMSH_MESH2D_ELEMENT_DATA_EXAMPLE returns element information for the example.
%
% Licensing:
%
% This code is distributed under the GNU... |
e3c208fcbad9c151c80cc09af94460715f4d1df753ccc2099fdbe8c6b9cfa6bd | MATLAB | 1,163 | 49 | function [ ind, thres ] = FDR(p_list, alpha)
% This code has been modified from the original version written by
% Edden Gerber, lab of Leon Y. Deouell, 2012. This code computes the
% False Discovery Rate according to Benjamini and Hochberg (1995).
%
% Inputs:
% - p_list
% A vector. This should be the co... |
d21c33c672d7c536af1c518086bd3e0954b2fd61858d2f8a5d763a8d045aa47c | MATLAB | 1,164 | 26 | function phi = deg2rad(phi)
%DEG2RAD returns the given angle in radians
% phi = deg2rad(phi) converts the angle phi given in degree to radians
%
% Input options:
% phi - angle, can be a scalar or matrix (degree)
%
% Output options:
% phi - angle (rad)
%
% See also: RAD2DEG
% SOF... |
edc04ac0381772fd50af249941cc0fed13b0053b8a55f25e831fcbd1a3fa1e94 | MATLAB | 1,165 | 50 | function [rho pval] = circ_corrcl(alpha, x)
%
% [rho pval ts] = circ_corrcc(alpha, x)
% Correlation coefficient between one circular and one linear random
% variable.
%
% Input:
% alpha sample of angles in radians
% x sample of linear random variable
%
% Output:
% rho correlat... |
964eb8d7219af28e2dc67549ef51d25ffaee125c234d3d67c6a88226bf693ac5 | MATLAB | 1,166 | 49 | function y = nansem(x,dim)
% FORMAT: Y = NANSEM(X,DIM)
%
% Standard error of the mean ignoring NaNs
%
% NANSTD(X,DIM) calculates the standard error of the mean along any
% dimension of the N-D array X ignoring NaNs.
%
% If DIM is omitted NANSTD calculates the standard deviation along first
% non-singl... |
1ac78aa85a64042e56663b32dddfbfccc734534c43e799cf0853d57f3e0e14a3 | MATLAB | 1,167 | 26 | function results = SOFAgetVersion(flag)
%SOFAGETVERSION
% version = SOFAgetVersion() returns the version of the SOFA API
% version = SOFAgetVersion('API') does the same.
%
% version = SOFAgetVersion('SOFA') returns the version of the SOFA
% supported by this API.
% SOFA API - function SOFAgetVersion
% ... |
8436f58eddc3a37e93c2124dc7f2b82f37fd09e15a087076663121e517c99a0b | MATLAB | 1,167 | 42 | function sleepstagesOUT = yasa2danalyzer(sleepstagesIN)
% Convert a YASA score file to a danalyzer score file.
%%
% Authors: Dan Denis
% Date: 2021-12-15
%%
sleepstagesOUT.stages = zeros(height(sleepstagesIN), 1);
for i = 1:height(sleepstagesIN)
if strcmpi(sleepstagesIN.Stage(i), 'W')
sleepstage... |
e444549a8828bf0ff266fa4385f089f7c063eef52ffb893952777f99abaec755 | MATLAB | 1,167 | 40 | function [ y, x ] = cvx_check_dimlist( x, emptyok )
% CVX_CHECK_DIMLIST Verifies the input is a valid dimension list.
% Copyright 2005-2016 CVX Research, Inc.
% See the file LICENSE.txt for full copyright information.
% The command 'cvx_where' will show where this file is located.
if nargin < 2 || emptyok,
xmin ... |
e974c3772b480643a2df44ad52a21116b0d14e67a16fabedd4c711eab5717d2d | MATLAB | 1,167 | 40 | function [ sims , index , csims ] = AssociationTFIDF( WD , Q )
NW = size( WD , 1 ); % number of words
ND = size( WD , 2 ); % number of docs
NQ = length( Q ); % number of queries
%---------------------------------
% Calculate TF-IDF weight
% --------------------------------
df = full( sum( WD>0 , 1 ));
idf ... |
e583489cc07a24bb3fc7f4ac3c5e1913f2b819bbb30464a7a1cbbf77f62bb9cf | MATLAB | 1,168 | 52 | function mpgMean = apply_MLP_matlab(signal, trainedML, MLdebias)
% Apply pretrained Multi Layer Perceptron regressor
%
% Author:
% Dr. Marco Palombo
% Cardiff University Brain Research Imaging Centre (CUBRIC)
% Cardiff University, UK
% 8th December 2021
% Email: palombom@cardiff.ac.uk
method = 0;
Mdl = trainedML.Mdl... |
0327f1f6ea63cc57e0ed73969bf98376e160f7cef7496007af93d96b51ac1029 | MATLAB | 1,169 | 31 | % ndims() - number of dimension of memory mapped underlying array
%
% Author: Arnaud Delorme, SCCN, INC, UCSD, Nov. 2008
% Copyright (C) 2008 Arnaud Delorme, SCCN, INC, UCSD
%
% 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
%... |
0973b68b5021283bbaa03c93b85a0b332732e22f555ae287cfe33ed3202e668f | MATLAB | 1,169 | 28 | function y = pow_p( x, p )
%POW_P Positive branch of the power function.
% POW_P(X,P) computes a convex or concave branch of the power function:
% P < 0: POW_P(X,P) = X.^P if X > 0, +Inf otherwise
% 0 <= P < 1: POW_P(X,P) = X.^P if X >= 0, -Inf otherwise
% 1 <= P : POW_P(X,P) = X.^P if X >=... |
636c45cc74b5480a919efa351536939b9b2f7ada91416a19b6aa02a38ae9d3ec | MATLAB | 1,169 | 53 | function T = vox2ras_tkreg(voldim, voxres)
% T = vox2ras_tkreg(voldim, voxres)
% voldim = [ncols nrows nslices ...]
% volres = [colres rowres sliceres ...]
%
% Computes the 0-based vox2ras transform of a volume
% compatible with the registration matrix produced
% by tkregister. May work with MINC xfm.
%
%
% vox... |
90873bd0644ad2d2b68279df8924db855a4f36e6bcba7eae175af0bb0b20a63e | MATLAB | 1,169 | 16 | % eeg_options() - eeglab option script
%
% Note: DO NOT EDIT, instead use pop_editoptions() or the menu
% /File/Maximize memory in EEGLAB gui
% STUDY options (set these checkboxes if you intend to work with studies)
option_storedisk = 0 ; % If set, keep at most one dataset in memory. This allows processing hund... |
3f320c0a69a959b8834ecc4efb37fefeb65fb2eff445258057e8e14066ba2e2c | MATLAB | 1,170 | 31 | fig = figure('name', 'symbol_heatmap', 'numbertitle', 'off');
set(gcf, 'visible', 'on', 'unit', 'centimeters', 'PaperUnits', 'centimeters', 'position', [0 0 20 20], 'color', 'w', 'PaperSize', [20, 15]);
for f = 3:3
row = ceil(f / 3);
col = mod(f - 1, 3) + 1;
x_offset = left_margin + (col - 1) * (pl... |
4f87a01c01af32d371c395fef8bf01c5e4961aba26b245eaeaedcaeaf24565d7 | MATLAB | 1,170 | 42 | function vatfv = ea_niiVAT2fvVAT(nii, smooth, smoothingfactor)
if ischar(nii) && isfile(nii)
nii = ea_load_nii(nii);
end
start = nii.mat * [1;1;1;1];
niisize = size(nii.img);
stop = nii.mat * [niisize,1]';
gv = cell(1,3);
for dim=1:3
gv{dim}=linspace(start(dim),stop(dim),niisize(dim));
end
[xg,yg,zg] = meshgr... |
495029ee15ab88d4fee934609eb7785ba3da089c6258486b915b271424d597f4 | MATLAB | 1,171 | 46 | % Local Regression and Likelihood, Figure 4.3.
% Author: Catherine Loader
%
% Residual plots for local likelihood.
% Henderson-Shepherd Mortality Data.
load morths;
fit = locfit(age,deaths,'weights',n,'family','binomial','alpha',0.5);
figure('Name','fig4_3a: Residual plots for local likelihood');
plot(age,r... |
30d8ddaa368cc7c046f86ee750544195c9816ce6db940d037b5881b4f8e6fa27 | MATLAB | 1,173 | 38 | function [no,el]=removeisolatednode(node,elem)
%
% [no,el]=removeisolatednode(node,elem)
%
% remove isolated nodes: nodes that are not included in any element
%
% author: Qianqian Fang, <q.fang at neu.edu>
%
% input:
% node: list of node coordinates
% elem: list of elements of the mesh, can be a regular array o... |
aff2d20f94667df0d19b0965e0ca1e87a4e9939dbecfe99ebbff905e75c09e92 | MATLAB | 1,173 | 43 | function niiFiles = ea_dcm_to_nii(dicom_dir, output_dir, tool)
% Simple wrapper that calls appropriate function to convert DICOM to NIfTI
% tool can be name of the tool or 1 - 4
% (1 - dcm2nii, 2 - dicm2nii, 3 - SPM, 4 - GDCM via Slicer)
if ~exist('output_dir', 'var') || isempty(output_dir)
output_dir = fullfile(d... |
bde7299335b6d6333a2a8e52303fb8ba26f556301fe9c2e8ecb716871bf17aa8 | MATLAB | 1,174 | 31 | function D=createDistanceMatrix(M,N)
% createDistanceMatrix calculates the distance matrix for two sets of points
%
% SYNOPSIS D=createDistanceMatrix(M,N)
%
% INPUT M and N are the matrices containing the set of point coordinates.
% M and N can represent point positions in 1, 2 and 3D, as follows... |
c6426016ad40282b8d255a61e0885f6482dc22b1a08a92880598255ce48c509e | MATLAB | 1,175 | 39 | function [x,V]=apply_kalman2D(ph,Q,R)
% addpath(genpath([pwd '\KalmanAll']));
% X(t+1) = F X(t) + noise(Q)
% Y(t) = H X(t) + noise(R)
% ph=sin(1:.1:100)+.5*(rand(1,991)-.5);
ss = 6; % state size
os = 2; % observation size
F = [1 1 .5 0 0 0;
0 1 1 0 0 0;
0 0 1 0 0 0;
0 0 0 1 1 .5;
0 0 0 0 1 1;
... |
def230112f00ec1c783ecf10edeeebb6c44bd7d1d3094a3fdb631b977e816c45 | MATLAB | 1,176 | 39 | % Equality constrained norm minimization.
%
% This script constructs a random equality-constrained norm minimization
% problem and solves it using CVX. You can also change p to +2 or +Inf
% to produce different results. Alternatively, you an replace
% norm( A * x - b, p )
% with
% norm_largest( A * x - b, 'larg... |
34a6159197304aca328cb0fc711309251b6848a27c674c98de815d9220ef8801 | MATLAB | 1,177 | 29 | function sanity_check_cdata(cifti)
%
%this calls cifti_diminfo_length, but that seems to work even without being on path
if ~isfield(cifti, 'cdata')
error('cifti structure is missing cdata field');
end
if ~isfield(cifti, 'diminfo')
error('cifti structure is missing diminfo field... |
a743872d19be41fa8592e09a711a2949ad1bc32483d332cebc5b72b3baeda3d6 | MATLAB | 1,177 | 32 | function [c,t] = quickfftxcorr(sptrain,stim,samprate,tstart,tend)
% [c,t] = quickfftSTavg(sptrain,stim,samprate,tstart,tend)
% calculate cross-correlation between two signals by multiplying in the Fourier Domain
% returns a segment c around the spike times between tstart and tend (in sec)
% tstart should be a negative ... |
8f36963d7fedcfa27d0398c0ce42f640ad3bff3e938771a0af1b1a9214a35012 | MATLAB | 1,178 | 36 | % At startup, matlab will find a file startup.m assumed to be located in directory specified by
% the environmental variable MATLABPATH (see http://www.mathworks.com/help/matlab/ref/startup.html).
%
if (~isdeployed)
if (~isempty(getenv('CBIG_CODE_DIR')))
% add all paths in CBIG_CODE_DIR subdirectories
... |
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