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License
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Apache License Version 2.0, January 2004 http://www.apache.org/licenses/ TERMS AND CONDITIONS FOR USE, REPRODUCTION, AND DISTRIBUTION 1. Definitions. "License" shall mean the terms and conditions for use, reproduction, ...
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License
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EUROPEAN UNION PUBLIC LICENCE v. 1.2 EUPL © the European Union 2007, 2016 This European Union Public Licence (the ‘EUPL’) applies to the Work (as defined below) which is provided under the terms of this Licence. Any use of the Work, other than as authorised under this Licence is prohibited (to the extent such use is...
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License
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Creative Commons Attribution-NonCommercial-ShareAlike 4.0 International Public License By exercising the Licensed Rights (defined below), You accept and agree to be bound by the terms and conditions of this Creative Commons Attribution-NonCommercial-ShareAlike 4.0 International Public License ("Public License"). To th...
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License
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GNU GENERAL PUBLIC LICENSE Version 2, June 1991 Copyright (C) 1989, 1991 Free Software Foundation, Inc. 59 Temple Place, Suite 330, Boston, MA 02111-1307 USA Everyone is permitted to copy and distribute verbatim copies of this license document, but changing it is not allowed. Preamble ...
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GNU GENERAL PUBLIC LICENSE Version 2, June 1991 Copyright (C) 1989, 1991 Free Software Foundation, Inc. 51 Franklin Street, Fifth Floor, Boston, MA 02110-1301 USA Everyone is permitted to copy and distribute verbatim copies of this license document, but changing it is not allowed. Prea...
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License
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GNU GENERAL PUBLIC LICENSE Version 2, June 1991 Copyright (C) 1989, 1991 Free Software Foundation, Inc. 59 Temple Place, Suite 330, Boston, MA 02111-1307 USA Everyone is permitted to copy and distribute verbatim copies of this license document, but changing it is not allowed....
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Attribution 4.0 International ======================================================================= Creative Commons Corporation ("Creative Commons") is not a law firm and does not provide legal services or legal advice. Distribution of Creative Commons public licenses does not create a lawyer-client or other relat...
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BFP: BrainSuite Functional Pipeline Copyright (C) 2023 The Regents of the University of California and the University of Southern California Created by Anand A. Joshi, Chitresh Bhushan, Jian Li, Soyoung Choi, David W. Shattuck, Richard M. Leahy For more information, contact: support@brainsuite.org or Anand A Jo...
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License
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The copyrights of this software are owned by Duke University. As such, two licenses for this software are offered: 1. An open-source license under the GPLv2 license for non-commercial use (see below). 2. A custom license with Duke University, for commercial use or for use without the GPLv2 license restrictions. As a ...
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The copyrights of this software are owned by Duke University. As such, two licenses for this software are offered: 1. An open-source license under the GPLv2 license for non-commercial use (see below). 2. A custom license with Duke University, for commercial use or for use without the GPLv2 license restrictions. As a ...
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Attribution-NonCommercial-NoDerivatives 4.0 International ======================================================================= Creative Commons Corporation ("Creative Commons") is not a law firm and does not provide legal services or legal advice. Distribution of Creative Commons public licenses does not create a ...
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Attribution-ShareAlike 4.0 International ======================================================================= Creative Commons Corporation ("Creative Commons") is not a law firm and does not provide legal services or legal advice. Distribution of Creative Commons public licenses does not create a lawyer-client or ...
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License
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CeCILL-B FREE SOFTWARE LICENSE AGREEMENT Notice This Agreement is a Free Software license agreement that is the result of discussions between its authors in order to ensure compliance with the two main principles guiding its drafting: * firstly, compliance with the principles governing the distribution ...
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License
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Copyright (c) 2024, 2025, 2026. Fundació Privada Institut d’Investigació Oncològica de Vall d’Hebron. All rights reserved. Vall d'Hebron Institute of Oncology (VHIO) Cellex Center, Carrer de Natzaret 115-117, 08035, Barcelona, Spain Tel: +34 932543450 email: info@vhio.net --- The code released in this repository has ...
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GNU AFFERO GENERAL PUBLIC LICENSE Version 3, 19 November 2007 Copyright © 2007 Free Software Foundation, Inc. <https://fsf.org/>
Everyone is permitted to copy and distribute verbatim copies of this license document, but changing it is not allowed. Preamble The GNU Affero General Public License is a free, copyleft licen...
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License
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GNU AFFERO GENERAL PUBLIC LICENSE Version 3, 19 November 2007 Copyright (C) 2007 Free Software Foundation, Inc. <http://fsf.org/> Everyone is permitted to copy and distribute verbatim copies of this license document, but changing it is not allowed. ...
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License
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GNU AFFERO GENERAL PUBLIC LICENSE Version 3, 19 November 2007 Copyright (C) 2007 Free Software Foundation, Inc. <http://fsf.org/> Everyone is permitted to copy and distribute verbatim copies of this license document, but changing it is not allowed. ...
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License
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GNU GENERAL PUBLIC LICENSE Version 3, 29 June 2007 Copyright © 2007 Free Software Foundation, Inc. <http://fsf.org/> Everyone is permitted to copy and distribute verbatim copies of this license document, but changing it is not allowed. Preamble The GNU General Public License is a free, copyleft license for software...
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GNU General Public License ========================== _Version 3, 29 June 2007_ _Copyright © 2007 Free Software Foundation, Inc. &lt;<http://fsf.org/>&gt;_ Everyone is permitted to copy and distribute verbatim copies of this license document, but changing it is not allowed. ## Preamble The GNU General Public Lice...
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License
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GNU General Public License ========================== _Version 3, 29 June 2007_ _Copyright © 2007 Free Software Foundation, Inc. &lt;<http://fsf.org/>&gt;_ Everyone is permitted to copy and distribute verbatim copies of this license document, but changing it is not allowed. ## Preamble The GNU General Public Lice...
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### GNU GENERAL PUBLIC LICENSE Version 3, 29 June 2007 Copyright (C) 2007 Free Software Foundation, Inc. <https://fsf.org/> Everyone is permitted to copy and distribute verbatim copies of this license document, but changing it is not allowed. ### Preamble The GNU General Public License is a free, copyleft license ...
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License
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Code specific for SPN processing is licensed with a GNU General Public License. BrainVISA software included in the container has other licenses (see https://brainvisa.info/web/download.html#licences). Source code for SPN computation can be found at https://github.com/willsnyder12/sulcal_phenotype_networks, and source c...
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License
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GNU GENERAL PUBLIC LICENSE Version 3, 29 June 2007 Copyright (C) 2007 Free Software Foundation, Inc. <http://fsf.org/> Everyone is permitted to copy and distribute verbatim copies of this license document, but changing it is not allowed. Preamble The GNU Genera...
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License
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GNU GENERAL PUBLIC LICENSE Version 3, 29 June 2007 Copyright (C) 2007 Free Software Foundation, Inc. <http://fsf.org/> Everyone is permitted to copy and distribute verbatim copies of this license document, but changing it is not allowed. Preamb...
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License
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GNU GENERAL PUBLIC LICENSE Version 3, 29 June 2007 Copyright (C) 2007 Free Software Foundation, Inc. <https://fsf.org/> Everyone is permitted to copy and distribute verbatim copies of this license document, but changing it is not allowed. Pre...
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MATLAB
31
2
function x = identity(x) end
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MATLAB
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function b = vect( a ) b = a(:); end
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MATLAB
49
2
function plotHypnogramPolar(config, MuseStruct)
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MATLAB
53
3
%function Tuned = LightTuning(TunedBin, LightBin)
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MATLAB
59
5
function list = numel2indices(n) list = 1:n; end
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MATLAB
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function [a, b] = swap(c, d) a = d; b = c; end
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MATLAB
61
5
function [y] = zscore(x) y = (x-mean(x))./(std(x)); end
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MATLAB
63
5
function p_corr = sidak_corr(p, N) p_corr = 1 - (1-p).^N; end
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MATLAB
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%% function [x] = finites(x) x = x(isfinite(x)); end
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MATLAB
67
3
function y = rms(u) y = sqrt(sum(u.*conj(u))/max(size(u))); end
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MATLAB
68
3
function result = even_pisco(int) result = not(rem(int,2)); end
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MATLAB
68
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%% % function [yes] = iszero(x) yes = (x == 0); end
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MATLAB
73
3
function yes = isInParallel() yes = ~isempty(getCurrentTask()); end
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MATLAB
73
5
function nowait() close(findall(0, 'Tag', 'TMWWaitbar')); end
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MATLAB
75
6
function out = vect(in) % Justin Haldar (jhaldar@usc.edu) out=in(:); end
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MATLAB
77
5
function yes = isfunction(f) yes = isa(f, 'function_handle'); end
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MATLAB
79
4
function test_available fprintf("Gadgetron External Matlab Module\n") end
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MATLAB
80
3
function mid = read_message_id(socket) mid = read(socket, 1, 'uint16'); end
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MATLAB
82
5
function yes = strge(str1, str2) yes = ( strcmpC(str1, str2) >= 0 ); end
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MATLAB
82
2
function dfF = estimateGCaMPresponse(spikingActivity) error('not implemented yet')
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MATLAB
89
6
%% function [rounded] = roundTo(x, unit) rounded = round(x/unit) * unit; end
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MATLAB
93
4
function version = gcmi_version version = '0.5'; fprintf(1,'GCMI Version: %s\n\n', version)
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MATLAB
94
6
%% function [middle] = rangemid(range) middle = (range(1) + range(end)) / 2; end
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MATLAB
96
3
function cplx = as_interleaved_complex(raw) cplx = complex(raw(1:2:end), raw(2:2:end)); end
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MATLAB
97
4
%% function [bin] = findBinUnbounded(x, xCenters) bin = findBin(x, xCenters, false); end
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MATLAB
97
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%% function [middle] = rangemiddle(range) middle = (range(1) + range(end)) / 2; end
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MATLAB
100
6
function [x,y] = addr2xy(addr) y = bitshift(addr, -8); x = mod(bitshift(addr, -1),128); end
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MATLAB
102
4
function sock = connect(address, port) sock = socket.Socket(java.net.Socket(address, port)); end
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MATLAB
102
8
%% % function [x] = poly1inv(f, y) p = coeffvalues(f); x = (y - p(2)) / p(1); end
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MATLAB
102
5
function yes = istablecol(t, name) yes = ismember(name, t.Properties.VariableNames); end
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MATLAB
104
3
function results = run_gcmi_cpp_mex_smoke_tests(varargin) results = gcmi_cpp_mex_test(varargin{:}); end
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MATLAB
104
3
function data = cfftn(data, dims) for dim = dims, data = gadgetron.lib.fft.cfft(data, dim); end end
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MATLAB
106
3
function data = cifftn(data, dims) for dim = dims, data = gadgetron.lib.fft.cifft(data, dim); end end
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MATLAB
108
5
%% Bring the Matlab editor into focus function editwindow() edit = meditor(); edit.toFront(); end
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MATLAB
111
7
function [Y2, R] = brainSyncT(X, Y) X = X'; Y = Y'; [Y2, R] = brainSync(X, Y); Y2 = Y2'; end
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MATLAB
111
8
%% % function [yes] = isnegative(x) yes = false(size(x)); yes( x < 0 ) = true; end
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MATLAB
111
8
%% % function [yes] = ispositive(x) yes = false(size(x)); yes( x > 0 ) = true; end
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MATLAB
113
3
function config = read_config(socket) config = gadgetron.external.readers.read_string(socket, 'uint32'); end
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MATLAB
113
3
function header = read_header(socket) header = gadgetron.external.readers.read_string(socket, 'uint32'); end
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MATLAB
116
5
multiActivityMap; result = compareMaps(allMaps,-1, 5); save(strcat(experimentName, ' compareMaps.mat'), 'result');
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MATLAB
117
6
%% Returns a column vector of the non-NaN elements of A. function s = nonnans(A) s = A(~isnan(A)); end
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MATLAB
117
4
function se = strel_sphere(sz) [x1,y1,z1] = ndgrid(-ceil(sz):ceil(sz)); se = (sqrt(x1.^2 + y1.^2 + z1.^2) <=sz); end
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MATLAB
118
4
function v = read_vector(socket, type) n_elm = read(socket, 1, 'uint64'); v = read(socket, n_elm, type)'; end
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MATLAB
118
3
% GCMI MATLAB regression checks. % % run_gcmi_regression_tests Execute deterministic smoke and regression checks.
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MATLAB
119
8
%% function [yes] = isintegral(x) % Checks if x is integral. yes = rall(istiny(abs(x - round(x)))); end
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MATLAB
119
6
%% Returns a column vector of the negative elements of A. function s = negatives(A) s = A(A(:) < 0); end
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MATLAB
119
6
%% Returns a column vector of the positive elements of A. function s = positives(A) s = A(A(:) > 0); end
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MATLAB
122
5
function d = point_to_line(pt, v1, v2) a = v1 - v2; b = pt - v2; d = norm(cross(a,b)) / norm(a); end
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MATLAB
123
3
function data = cfft(data, dim) data = fftshift(fft(ifftshift(data, dim), [], dim), dim) ./ sqrt(size(data, dim)); end
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MATLAB
123
3
function map = palegreen(varargin) map = [247 255 201 1; 200 242 126 1] / 255; map = colormap_helper(map, varargin{:});
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MATLAB
123
6
%% function [yes] = haslimits(range) yes = hasspan(range) && isfinite(range(1)) && isfinite(range(end)); end
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MATLAB
125
3
function data = cifft(data, dim) data = ifftshift(ifft(fftshift(data, dim), [], dim), dim) .* sqrt(size(data, dim)); end
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MATLAB
126
6
%% function [yes] = hasspan(range) yes = isnumeric(range) && numel(range) > 1 && ( range(end) > range(1) ); end
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MATLAB
126
5
function passthrough(connection) connection.filter(@(~, ~) false); tic, gadgetron.consume(@connection.next); toc end
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MATLAB
127
5
function nt_imagescc(C) %nt_imagescc - plot image with symmetric scaling m=max(abs(C(:))); imagesc(C,[-m-realmin,m+realmin]);
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MATLAB
130
8
function fgfig() fig = findall(0, 'Type', 'figure'); for iFig = 1:numel(fig) figure(fig(iFig)); end end
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MATLAB
131
6
function write_vector(socket, vector) size = uint64(numel(vector)); write(socket, size); write(socket, vector); end
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MATLAB
134
9
function d = dtwdist(Xi, Xj, varargin) [m,n] = size(Xj); d = zeros(m,1); for j = 1 : m d(j) = dtw(Xi,Xj(j,:), varargin{:}); end
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MATLAB
135
8
%% % Returns the middle element. function [x] = middle(v) index = ceil( numel(v) / 2 ); x = v(index); end
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MATLAB
137
4
function [axs, index] = nextPanel(pan, index, varargin) index = index + 1; axs = selectPanel(pan, index, varargin{:}); end
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MATLAB
139
6
function idx = block_index(bi, blocklen, siglen) start = (bi-1)*blocklen + 1; finish = min(start+blocklen-1, siglen); idx = start:finish;
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MATLAB
140
7
function [value, index] = minabs(array, varargin) [~, index] = min(abs(array), varargin{:}); value = array(index); end
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MATLAB
140
7
function [yes] = isaxes(x, type) % ISAXES Returns true if the given item(s) are axes handles. yes = ishghandle(x, 'axes'); end
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MATLAB
140
7
function [value, index] = maxabs(array, varargin) [~, index] = max(abs(array), varargin{:}); value = array(index); end
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MATLAB
143
10
classdef AcquisitionStats properties end methods function self = AcquisitionStats(~) end end end
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MATLAB
144
6
function cohenf = f2cohenf(F,df1,df2) % calculate partial eta square from F-value and degrees-of-freedom cohenf = sqrt((F .* df1) ./ df2); end
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MATLAB
146
8
%% function to calculate rate overlap function ROL = GetRateOverlap(vec1, vec2) ROL = 1 - abs(vec1-vec2)./(vec1+vec2); end
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MATLAB
146
9
%% All but the last n elements (default 1) function y = butlast(x, n) if nargin < 2 n = 1; end y = x(1:end-n); end
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MATLAB
148
9
%% All but the first n elements (default 1) function y = butfirst(x, n) if nargin < 2 n = 1; end y = x(n+1:end); end
7bdcef4f4f406e189b227d5b4bfcc37675a3321296e6a00b4d3ba47d4a56aee0
MATLAB
151
4
%% function to do mismatch statistics MisMatchRate = [rate_ordered{1}(:,1); rate_ordered{2}(:,2)]; UniFormRate = unifrnd(0,1, size(MisMatchRate));
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MATLAB
151
6
function etaSqP = f2etaSqp(F,df1,df2) % calculate partial eta square from F-value and degrees-of-freedom etaSqP = (F .* df1) ./ (F .* df1 + df2); end
ea2e7b19021a958bf8929588ee55599f99da34aad70f27a42c51f9f739c5bc75
MATLAB
152
6
function Joined = MultiOuterJoin(varargin) Joined = varargin{1}; for k = 2:nargin Joined = outerjoin(Joined, varargin{k},'MergeKeys', true); end end
0d3b4a23fe5fe660cbd4ff63fe71840258758288fc68671a235e47e8812c3d8a
MATLAB
154
4
function string = read_string(socket, size) length = read(socket, 1, size); string = native2unicode(read(socket, length, 'uint8')', 'UTF-8'); end
576dd5493ba0ad9a4cdad9349203eaa3619bbd221e4989a849d4f815a842958a
MATLAB
154
7
function handle = findParent(handle, type) while ~isempty(handle) && ~strcmp(get(handle,'Type'), type) handle = get(handle, 'Parent'); end end
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MATLAB
155
8
%% function [rMin] = rangemin(range1, range2) rMin = [ max([range1(1) range2(1)]) ... , min([range1(2) range2(2)]) ... ]; end