sha256 stringlengths 64 64 | language stringclasses 28
values | size int32 1 491k | lines int32 1 23.2k | content stringlengths 1 200k |
|---|---|---|---|---|
47cc55b13d24f69766aa1ca0808cde0de75e14df6b3815e8f5904a2ee69b0f0c | MATLAB | 974 | 30 | % Function which computes Factor Analysis (FA)
% INPUTS:
% data : data on which to perform Factor Analysis,
% size: (number of neurons)x(number of timepoints)
% zDimList : list of dimensions to try out for FA
% numFolds : number of cross-validation folds for FA
% OUTPUTS:
% dim : results for... |
77629a918db3c99ada74a0f5fda4d522c46990dec1400526c41d00e0968dd87c | MATLAB | 974 | 64 | % make graph for figure 1 of IRM paper by Kemp et al
%{
% from TR 2004
G = zeros(9,9);
G(1,[3 5 7 8 9])=1;
G(2, 9) = 1;
G(3, [7 8 9])=1;
G(4, [2 3 7 8 9])=1;
G(5, [7 9])=1;
G(6, [2 3 5 7 8 9])=1;
G(7, 4)=1;
G(8, [6 7 9])=1
%}
% FROM AAAI'06
G = zeros(9,9);
G(1, [3 5 8])=1;
G(2, [7 9]) = 1;
G(3, [3 7 9])=1;
G(4, [2 3... |
953e2177c164fb379f1d9431ca03ddd94c8d233a8d0b194803107dee300bf033 | MATLAB | 974 | 35 | function [nodeBels, logZ, edgeBels] = mrfInferNodes(mrf, varargin)
%% Return all node beliefs (single marginals)
%
% mrf is a struct as created by mrfCreate
%
% Optional named args are the same as for dgmInferNodes
%
%%
% This file is from pmtk3.googlecode.com
[clamped, doSlice, args] = process_options(varargin, '... |
b83c3169fbad1feae60af61be1885ec077ed317225355137d60467f72310db42 | MATLAB | 974 | 28 | function [th,ah] = plot_trajectory(ax,traj,simulation,plotArgs)
if (nargin < 1) || isempty(ax)
figure;
ax = axes;
end
if (nargin < 4) || isempty(plotArgs)
plotArgs = {'LineWidth',2};
end
th = gobjects(size(traj));
ah = gobjects(size(traj));
cmap = [ linspace(1,0.5,num... |
8d33731773f3cdcaecd50087573432e13c2b59271f926696b920bbda595d3e43 | MATLAB | 975 | 22 | clear all
%%
%Define Parameters
[opt] = ParameterOptions();
%%
%Define Parameters for Oscillating gradients - Consistent with Aggarwal et al.
opt.nOscillations=3; % Number of oscillations per TR
opt.Waveform='Sine'; % Type of Oscillating Gradient. Choose from Rect (conventional rectangular gradient), Rect_Sym (sy... |
04c760e5f1f12a47de5edcfb65a9aeb53f3eba59d62d55f0c0bdcc49fd28d84a | MATLAB | 976 | 38 | % plot_FigS4 of LIP single trial paper
%% load signals for plotting single trials and trial averages
load(fullfile(saveLoc, 'sig_allSessions'))
plotSig = {'Ramp', 'PC1', 'TinC'};
sigName = {'S^{ramp} [a.u.]', 'S^{PC1} [a.u.]', 'S^{con}_{Tin} [sp/s]'};
sigCohs = nanunique(sigSL.sig_coh);
fWin = 80; fW... |
7dc0cf0d5b090befb24c40fb2c0da9a28368a08d28d173bd2862fe534aebc9fd | MATLAB | 976 | 28 | % Functon that puts a figure on second monitor, if available.
% From https://www.mathworks.com/matlabcentral/answers/16663-is-it-possible-to-viewing-the-figure-window-on-second-display
function FigHandle = figure2(varargin)
MP = get(0, 'MonitorPositions');
if size(MP, 1) == 1 % Single monitor
FigH = figure(varargin... |
c86198f8d8104c9a1b516d51b1c6cabffcb65499ef4aea960c097a166c7fd503 | MATLAB | 976 | 11 | function PlotBox3D(ZPosition,BoundingBox,LineStyle,LineColor,LineWidth,Text,TextFontSize,TextFontColor)
plot3([BoundingBox(1),BoundingBox(1)+BoundingBox(3)],[BoundingBox(2),BoundingBox(2)],[ZPosition,ZPosition],LineStyle,'color',LineColor,'LineWidth',LineWidth);
plot3([BoundingBox(1),BoundingBox(1)+BoundingBox(3)],[... |
e191da3c99ddcac299d57142e1f54c3f85b21a52eb73590fa50409517a4db151 | MATLAB | 976 | 46 | function [] = unpack_struct(ss, ws)
%unpack_struct Creates and/or assigns variables in the base workspace
%
% [] = unpack_struct(ss, [ws])
%
% This functions creates or assigns variables as specified by the
% field names and values in structure ss.
%
% For example, if ss consists of
%
% crap1: 123
% ... |
503d2af8721547c4918dd00d9d1ec07b798bda316dbaa43d350858708f8fcb14 | MATLAB | 977 | 38 | function A = VBA_orth (A, norm)
% // VBA toolbox //////////////////////////////////////////////////////////
%
% A = VBA_orth (A, norm)
% Iteratively orthogonalize the columns of A. In other words, this function
% considers each column serially to project it in the null
% space of the previous columns of A.
%
% IN:
% ... |
a9a14277c941d691ecaac9d4deb065c8eecb1554893c06d5bfd7a0329ba21d77 | MATLAB | 977 | 45 | %% Bayesian Sequential Updating of a Gaussian
%
%%
% This file is from pmtk3.googlecode.com
setSeed(0);
muTrue = [0.5 0.5]'; Ctrue = 0.1*[2 1; 1 1];
xrange = [-1 1 -1 1];
n = 50;
model = struct('mu', muTrue, 'Sigma', Ctrue);
X = gaussSample(model, n);
ns = [1 5 10 50];
figure;
nr = 2; nc = 3;
subplot(nr, nc,1);
plot(... |
e58942e9123ecd2368024c43752d7d81d2ab51aa6e93632547a3dbbf11663ec0 | MATLAB | 977 | 44 | function varargout = myparse(params,varargin)
nin = length(varargin)/2;
nout = nargout;
if mod(2*nin,2)~=0 || mod(length(params),2)~=0,
error('Odd number of parameters expected');
end
% set defaults
varargout = varargin(2:2:2*nout);
% parameter names
names = varargin(1:2:end);
% go through parameters
for i = 1:2:... |
f52d0771812b29a9ff1fec53cf80ccd326b0d9a35f76b7178e9b68c6b0ac9902 | MATLAB | 977 | 27 | %%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
% To identify the discharge times of the motor unit
% Input:
% w = weigths
% X = whitened signal
% fsamp = sampling frequency
% Output:
% icasig = MU pulse train
% spikes2 = discharge times of the motor unit
%%%%%%%%%%%%%%%%%%%%%%... |
51c72cd15acef9ce4725d20ac926b402f0bf3dacaaaa773682158aaea0196901 | MATLAB | 978 | 38 | %% MLP Classification Demo
% Based on Mark Schmidt's Demo from
% http://people.cs.ubc.ca/~schmidtm/Software/minFunc/minFunc.html#9
%%
% This file is from pmtk3.googlecode.com
H = [3, 6, 9];
for hi=1:length(H)
nhidden = H(hi);
setSeed(0);
nVars = 2;
nInstances = 400;
options.Display = 'none';
options.MaxIter = 100;
... |
bc348dd193d27efa7a94c145e9bda4c467ee571711f215e563dec3aedb29bf66 | MATLAB | 978 | 29 | function yhat = dtpredict(tree,Xtest)
% Predict output using a decision tree trained via dtfit. i.e.
% tree = dtfit(Xtrain,ytrain);
% yhat = dtpredict(tree,Xtest);
n = size(Xtest,1);
paths = {'right','left'};
if(isnumeric(tree.yhat) || islogical(tree.yhat))
yhat = zeros(n,size(tree.yhat,2));... |
cb7d1ca3aedce68ff69fac7c78f5b8a91475a5b086fc247bfcf5f3492eeba571 | MATLAB | 978 | 40 | % MF_SPDIAG_SV_P Dispatch for MF_SPDIAG with DINV = 1 and F.SYMM = 'P'.
function D = mf_spdiag_sv_p(F,spinfo)
% initialize
N = F.N;
n = length(spinfo.i);
P = zeros(N,1); % for indexing
D = zeros(N,1); % for output
% loop over all leaf blocks from top to bottom
for i = n:-1:1
% find active indic... |
52f851aeae755b8adbdac1b22cc24c46d1bb4abb396fe7df5ddefa83aa01c544 | MATLAB | 979 | 38 | function [nchannel, idxgrid] = getgridconfigQuattro(ports, adapter)
% find the ports from the Quattrocento with a grid
idxports = find(ports == 1);
if ~isempty(idxports == 2) || ~isempty(idxports == 6)
nchannel = 408;
elseif ~isempty(idxports == 5)
nchannel = 312;
elseif ~isempty(id... |
a19951a8ff6a0e0d0f4d7c77a5188b5e5fc6af6ad3f05878b115978bae5d6d06 | MATLAB | 979 | 48 | function synchrot = plot_syncro_g(LANs)
LAN = LANs{1};
cond = length(LAN);
chanlocs = LAN{1}.chanlocs;
for l = 1:cond
p_val{l} = LAN{l}.phase.alpha;
end
for lan = 2:length(LANs)
LAN = LANs{lan}
for l = 1:cond
p_val{l} = cat(2,LAN{l}.phase.alpha)
end
end
%%%%%%%%%%%%%%%%
alpha =p_val{1} ;
for i = ... |
17b59c1665e0893d8e12ecabd2c748109e853fe2c92ba93e1b105bea8f6831cd | MATLAB | 980 | 34 | function [z, r, logSumRho, logr, Nk] = mixGaussBayesInfer(model, X)
% z(i) = argmax_k p(z=k|X(i,:), model) hard clustering
% pz(i,k) = p(z=k|X(i,:), model) soft responsibility
% ll(i) = log p(X(i,:) | model) logprob of observed data
%
% Calculate responsibilities using Bishop eqn 10.67
% This file is from pmtk3.googl... |
32aff882419cdd87911ce23dbbad8eb4fc5df387717db9801ace6376ddea6b86 | MATLAB | 980 | 39 | %% Plot a Dirichlet distribution in 3d
%PMTKauthor Peter Perkins
%PMTKurl http://www.mofeel.net/582-comp-soft-sys-matlab/86896.aspx
% This file is from pmtk3.googlecode.com
alphaVals = [10];
for alpha=alphaVals(:)'
alphas = alpha*ones(1,3);
x1 = linspace(0,1,101);
x2 = linspace(0,1,101);
[X1,X2] = ndgrid(x1,x2);
X3... |
5f19606eeab360e7515fdf6e7208b38f39e4991f18d8f09c8cd39a1181c66f81 | MATLAB | 980 | 40 | function im = plotWindows(m,opts,vals)
%
%-----------------------------------------
% im = plotWindows(m,opts,vals)
%
% plots window functions as an image,
% can scale grayscale values of each region
%
% m: structure contining window functions
% opts: structure with options (see metamerOpts.m)
% vals: vector of weigh... |
629494e98bb2284341e264c80141007aef74a0287a494023dd5969df87f61361 | MATLAB | 980 | 30 | function [fx,dfdx,dfdP] = f_Qlearn2(x,P,u,in)
% evolution function of q-values of a RL agent (2-armed bandit problem)
% [fx,dfdx,dfdP] = f_Qlearn2(x,P,u,in)
% Here, there are only two q-values to evolve, i.e. there are only two
% actions to reinforce (2-armed bandit problem).
% IN:
% - x_t : q-values (2x1)
% - P :... |
87fd1aca77376af019cadf506d7fa40e5d3ef44810c42047316aa5b08c40ef10 | MATLAB | 980 | 30 | %% Convert a dgm to a pairwise mrf
%
%%
% This file is from pmtk3.googlecode.com
dgm = mkSprinklerDgm;
%% first compute marginals using dgmInferNodes
nodeBels = dgmInferNodes(dgm);
%% compare these to beliefs from equivalent pairwise fg (low level)
fg2 = factorGraphMakePairwise(dgmToFactorGraph(dgm));
cg2 = cliqueGr... |
c05701834d0847348d8aa02142b63375bd4dee8c174250d73b5022103a65a4ef | MATLAB | 980 | 40 | % MF_SPDIAG_MV_P Dispatch for MF_SPDIAG with DINV = 0 and F.SYMM = 'P'.
function D = mf_spdiag_mv_p(F,spinfo)
% initialize
N = F.N;
n = length(spinfo.i);
P = zeros(N,1); % for indexing
D = zeros(N,1); % for output
% loop over all leaf blocks from top to bottom
for i = n:-1:1
% find active indic... |
3882239dfa4b456c6d92431acfc0b44d46d2ed05a4bd0745d343cb1e0d633a79 | MATLAB | 981 | 33 | % VesselRegression.m
% Sarah West
% 9/14/21
% Runs hemodynamic correction by regressing pixels against blood vessel
% timeseries.
% RIGHT NOW THE BLOOD VESSEL MASKS AND THE NOW-MASKED bDATA ARE DIFFERENT
% SIZES
function [corrected_data]= VesselRegression(bData, vessel_masks)
% Inputs:
% bData-- a 2D matrix of all th... |
89b35b8ef004b6c4e86d2615b5cef3241081c8f8466ea488a8e4857c06fbe95a | MATLAB | 981 | 34 | function [fx,dF_dX,dF_dTheta] = f_vanDerPol(Xt,Theta,ut,inF)
% evolution function for the Van Der Pol (limit cycle) oscillator.
% function [fx,dF_dX,dF_dTheta,d2F_dXdTheta] = f_vanDerPol(Xt,Theta,ut,inF)
% IN:
% - Xt: current hidden state
% - Theta: evolution parameter
% - ut: current input to the system
% - in... |
f658a9717f2a1a6724cc23b9af404b316a397670927c5d4dcce4483cdc4a2a28 | MATLAB | 981 | 39 |
satis_distort = 0;
disp(['Estimated focal: ' num2str(f_g) ' pixels']);
while ~satis_distort,
k_g = input('Guess for distortion factor kc ([]=0): ');
if isempty(k_g), k_g = 0; end;
xy_corners_undist = comp_distortion2([x' - c_g(1);y'-c_g(2)]/f_g,k_g);
xu = xy_corner... |
72200746c75a727d73b3d568a96ea853e51912021b7b20974fcb025195a72080 | MATLAB | 982 | 36 | function missing_files = check_raw_data()
config = utils.get_studydetails();
missing_files = {};
for subj = 1:19
subjname = sprintf( 'sub0%02d', subj );
subjpath = fullfile(config.datadir,'raw_data',subjname);
% Check fif locations
for run = 1:6
runpath = full... |
8dd0fb7723536f0a26e36ace4fe3c2106fbb86ae1631f53e002bf49427cf78c4 | MATLAB | 982 | 30 | function f = makeVideo(axh, vname, outFormat)
f = repmat(struct('cdata',[],'colormap',[]),1,numel(axh));
for i = 1:numel(axh)
f(i) = getframe(axh(i));
end
if strcmpi(outFormat, 'mp4')
vw = VideoWriter(vname, 'MPEG-4');
%vw = VideoWriter(vname, 'Motion JPEG 2000');
vw.Qual... |
a582245433fbf7842d391dbf53a66aa48d96bf47ed07401864c7254b52e5c47d | MATLAB | 982 | 24 | rgb = [0.1 0.4 0.5; 0.7, 0.4, 0.7];
areatxt{1} = 'lip'; areatxt{2} = 'fef';
for iArea = 1: 2
figtitle = upper(areatxt{iArea});
figure('color',[1 1 1])
vx=-1:0.025:1;
ax(1) = gca;
signHistNeg = hist(index{iArea}(h{iArea}(:,1)==1 & index{iArea}<0,1), vx);
signHistPos = hist(index{iArea... |
aab4f138d9a26385d30846bf6ba4a5852a1c3f5e6b05240510e03cfeb53cb820 | MATLAB | 982 | 31 | function ret = make_links_in_color_correction_dir()
ret = true;
loadParameters;
src_dir = relpath(params.colorCorrectionImagesDir,params.deconvolutionImagesDir);
old_dir = pwd;
cd(params.colorCorrectionImagesDir);
FILEROOT_NAME = sprintf('%s-downsample',params.FILE_BASENAME);
for r_i = ... |
5c9c607afa8d1dba1989ece28c183ce0a48de06535d4050491c42bbcba52e64e | MATLAB | 983 | 30 | function B = full(A)
%FULL Convert a sptenmat to a (dense) tenmat.
%
% B = FULL(A) converts a sptenmat A to a (dense) tenmat B.
%
% See also SPTENMAT, TENMAT.
%
%MATLAB Tensor Toolbox.
%Copyright 2015, Sandia Corporation.
% This is the MATLAB Tensor Toolbox by T. Kolda, B. Bader, and others.
% http://www.sandia.go... |
c38af5830318cc0dfacaf2cb966ed4404a72c83b1da68d77a9d3381d2e44e8b6 | MATLAB | 983 | 26 | function ph = circle_sector(ax,x0y0,R,theta,color,n_points,varargin)
% plots a circular sector centered at x0y0 = [x0, y0], with radius R, between angles theta(1) and theta(2)
% remaining args are forwarded to patch function via set(ph,varargin{:})
%
% returns patch handler
assert(isnumeric(x0y0) && (numel(x0y0) =... |
e8b0499ef80ab054c544dc10076c7babda6d51ebf07f87fc26fe7f53952f5433 | MATLAB | 983 | 25 | % Copyright (C) 2023 Trevor S. Smith
% Drexel University College of Medicine
%
% This program is free software: you can redistribute it and/or modify
% it under the terms of the GNU General Public License as published by
% the Free Software Foundation, either version 3 of the License, or
% (at your option) any l... |
698f794f4754af861181a6e98eb7d3a79d39b3bd24f1bbda5e101cca1198da67 | MATLAB | 984 | 31 | data = readtable('PSTHdata.csv');
data = table2array(data);
[coeff,score,latent,tsquared,explained,mu] = pca(data);
%Plot the two top PCs
dataRed = score(:,1:3);
labels = readtable('ClassLabels.csv');
labels = table2cell(labels);
labelsWords = cell(1);
labelsWords{1} = 'Onset+Inhib';
labelsWords{2} = 'OnSus+In... |
dbab103da2aac61c2a581105d649b2c085dc63c7dec21a15e8ba433e8cedb041 | MATLAB | 984 | 31 |
load clab_example;sc=prepare_sourcereconstruction_highlevel(clab_example);
loc=sc.cortex.vc;
tri=sc.cortex.tri;
locm=mean(loc);
[nloc,ndum]=size(loc);
relloc=loc-repmat(locm,nloc,1);
dis=(sqrt(sum((relloc.^2)')))';thresh=3;dis(dis<thresh)=thresh;
%map=colormap('jet');newmap=colormap_interpol(map,3);size(newmap);col... |
66efcd4c7df110811597ddc77793b19855ddc23485ccf680204ef3902c0d98f8 | MATLAB | 985 | 39 | function inds = fernsInds( data, fids, thrs )
% Compute indices for each input by each fern.
%
% USAGE
% inds = fernsInds( data, fids, thrs )
%
% INPUTS
% data - [NxF] N length F binary feature vectors
% fids - [MxS] feature ids for each fern for each depth
% thrs - [MxS] threshold corresponding to each... |
73d9959b7845b5fb857d8d0ed97816906a2f617e6b13ce99c3e360bc645ce7c6 | MATLAB | 985 | 31 | % specify the location of this download in the line below:
% eg download_path = '/home/disk3/ajquinn/HMM_frontiers_download';
download_path = ''; % <- change this line
if isempty(download_path)
error('Please specify the location of the download path inside hmm_0_initialise.m');
end
if exist( download_path, 'dir' ... |
b9e50030139a7a6f445616436b8ad08d03969dc2f3684ad8038947dadc196887 | MATLAB | 985 | 39 | %% Classify some MNIST digits using a binary RBM
%PMTKauthor Andrej Karpathy
%PMTKmodified Kevin Murphy
% This file is from pmtk3.googlecode.com
setSeed(0);
Ntrain = 1000; Ntest = 100; keepSparse = false;
binarize = false;
[Xtrain, ytrain, Xtest, ytest] = setupMnist('binary', binarize, 'ntrain',...
Ntrain,'ntest... |
0473164e6f49955218bea8c85c9b086f94f4d07313d14a5afa701a8c9f5e3cb8 | MATLAB | 986 | 42 | %% Multinomial Bayes Factor demo
%
%%
% This file is from pmtk3.googlecode.com
function multinomIndepLogBF()
counts = [...
15 29 14;
46 83 56];
[logBF] = helper(counts)
pIndepOverDep = exp(logBF)
end
function [logBF] = helper(counts)
Njk = counts;
Nj = sum(counts,2);
Nk = sum(counts,1);
N = sum(counts(... |
17a6bde18ffbc7156836dec70fd563fe6a360fbd400cdcc530d9784ac5783b4a | MATLAB | 986 | 39 | %%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
%%% mni2cor
%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
function coordinate = mni2cor(mni, T)
% function coordinate = mni2cor(mni, T)
% convert mni coordinate to matrix coordinate
%
% mni:... |
290d1b8d26866a326ce34b8587d939705e6960d9d2c6b290136c9a204c8786dd | MATLAB | 986 | 30 | function [binnedRaster] = binRaster(rasterToBin, binEdges);
%%% >>> OPERATION >>>
% Binning of spike raster (moving sum of n nearby points, where
% n=binEdges).
% Probably slower than using sepblockfun function, but works even when
% binEdges is not multiple of the number of time points.
% >>> INPUT VARIABLES >>>
% N... |
497a93d8997808b67c9b2a172905cafb6f8899ab3f367f1f850660a26ecb616a | MATLAB | 986 | 45 | function outpoints = mni2tal(inpoints)
% Converts coordinates from MNI brain to best guess
% for equivalent Talairach coordinates
%
% :Usage:
% ::
%
% outpoints = mni2tal(inpoints)
%
% Where inpoints is N by 3 or 3 by N matrix of coordinates
% (N being the number of points)
%
% :Output:
%
% **outpoints:**
% ... |
5749f60ac1cc0a3530fd34e2f97c09a3736c6b0d6159aff63a8e07e027702d2d | MATLAB | 986 | 31 | function sz = size(a,idx)
%SIZE Size of tenmat.
%
% D = SIZE(X) returns the two-element row vector D = [M N]
% containing the number of rows and columns in the matrix.
%
% M = SIZE(X,DIM) returns the length of the dimension specified by
% the scalar DIM. For example, SIZE(X,1) returns the number of
% rows.
... |
5a1e22b8d7883ba4e395c6d13af36bb00fda6dfcc021ac29055a5cdc8a9bda73 | MATLAB | 986 | 32 | function [S] = plane_a380(iref)
npatches = double(7834*(4^iref));
norder = 3;
npols = int32((norder+1)*(norder+2)/2);
npts = double(npatches*npols);
srcvals = zeros(12,npts);
srccoefs = zeros(9,npts);
wts = zeros(npts,1);
iptype = zeros(npatches,1);
ixyzs = zeros(npatches+1,1);
n... |
978db1caf9a7fcaea1c1af7d5b30b75e1982977befa2eb54ec8acb631a967a3a | MATLAB | 986 | 40 | L1_m=[];
MED=[];
bef=input('baseline (s)=');
dur=input('duration (s)=');
dur=dur+bef;
lab={};
for n=-bef:5:dur-bef;
lab=horzcat(lab,int2str(n));
end
%%
for n=1:1:size(onset,2);
[~, tr1_st_unit(n)]= min(abs(TIME-(onset(n)-bef)));
tr1_ed_unit(n)=tr1_st_unit(n)+120*dur;
MED=median(Tr_Ds_... |
a7a189e93d0280e37e3dc6915d0f245c3b467b6ebc1b7aa3a60b1cd7769da5b7 | MATLAB | 986 | 52 | load for_plots_mediation_norm_to_se.mat
%%
J = ismember({leverage.signal},'MinC');
J = find(J,1);
L1 = leverage(J).per_session.self_mediated;
J = ismember({leverage.signal},'MinI');
J = find(J,1);
L2 = leverage(J).per_session.self_mediated;
p = publish_plot(2,1);
set(gcf,'Position',[556 205 288 607]);
V = {'rh... |
1e67c39170aeb074e2c7f0e426f6a550b4f63e3cc24917948e8ec0c7b5e4e78d | MATLAB | 987 | 33 | function mask2mesh_2D(bmpfile,pixeldim,edgesize,triarea,saveloc,type,offset)
% mask2mesh_2D(bmpfile,pixeldim,edgesize,triarea,saveloc,type)
%
% creates a nirfast mesh from a 2D mask (bmp)
%
% bmpfile is the location of the bmp mask
% pixeldim is the pixel dimension of the mask, 2 values, x and y
% triarea is the desir... |
25dedbe383327c234720599b0948bcd472c4fe18793d73f0ca137dc1ee7231d1 | MATLAB | 987 | 37 | function [tf] = lObjGetIsLabeled(lObj,labelsfld,tbl,gt,fullylabeled)
if nargin < 5,
fullylabeled = false; % KB: set default to be any kps labeled
end
tf = false(height(tbl),1);
for i = 1:numel(lObj.(labelsfld)),
if gt,
movi = -i;
else
movi = i;
end
idx = tbl.mov == movi;
... |
97c30752fa38885b56c073628ff82b68e772f9b208b201b674a05c308c24ca89 | MATLAB | 987 | 45 | %% singular function for implementing predictions
% in time. This uses the iterative update method.
%
% Note that each probability vector is handled independently;
%
% sdo = Singlular SDO matrix to apply to px0
%
% px0 = NSTATES x nObs column-vector array of initial probability.
%
% N_STEPS = This is the relative n... |
9f465c5ec0e7539e9012cce45933d990a7767282957ba9ffc973d28767fcdeb1 | MATLAB | 987 | 33 | function [niix, mapping, dummy] = get_niix(filenames,Dt)
for i = 1:size(filenames,1)
try
nii = ea_load_nii(filenames{i});
if i == 1
% allocate space to speed up the process
niix = zeros(size(filenames,1),size(nii.img(:),1));
mapping =... |
a81481ba313fe264afa9f7bca57b40744f53a62aa613d8df231b0cdeee54b968 | MATLAB | 987 | 45 | function [type,center,theta,foci,ecc,normform] = conic_properties(A,B,C,D,E,F)
[type,x0,y0,theta,A2,B2,C2,D2,E2,F2] = conic_standard_form(A,B,C,D,E,F);
% change from translation followed by rotation to rotation followed by
% translation
% x <- (x + u)*R
% = x*R + u*R
R = [cos(theta),sin(theta);-sin(theta),cos(theta)]... |
ae2b8f2b8044b9b1827bf5cb518fc3186daab69f4c7f605cd93ced0c1c9ba6e9 | MATLAB | 987 | 32 | function I = subsToArray( subs, vals, siz, fillVal )
% Converts subs/vals image representation to array representation.
%
% Constructs array from subs/vals representation. Similar to Matlab's
% sparse command, except doesn't actually produce a sparse matrix. Uses
% different conventions as well.
%
% USAGE
% I = subs... |
7a75570b6004e942049a9d82a032cb17ebb459cab9b5fb9aed6b637cc9b918a2 | MATLAB | 988 | 22 | function [ax,rh] = plot_arena_circle(ax,mouse_track,plotArgs)
if (nargin < 1) || isempty(ax)
figure;
ax = axes;
end
if (nargin < 3) || isempty(plotArgs)
plotArgs = func.get_cell_set_default(plotArgs,'LineWidth',2,'EdgeColor','k','FaceColor',0.9.*ones(1,3));
end
%if (nargin < ... |
9ac2a38ea062d7c8d8ca3e2aae615e7ad31b2417e586e2d4ef14d0e1c71fbd54 | MATLAB | 988 | 44 | function [y,labels] = generateGMM(n,lambda,mu,gamma,verbose)
%
% function y = generateGMM(n,lambda,mu)
% This function generates n observations following a MoG distribution
% given by the class frequencies lambda, their mean mu and their variance gamma.
try, verbose = ~~verbose; catch, verbose = 1; end
p = size(mu,1... |
dd1e87bfb06ab763c1de69c6aee8ab19e46acb917cea0709a14b8d79a2c21c46 | MATLAB | 988 | 46 | function [options] = VBA_check4DCM(options)
A = options.inF.A;
B = options.inF.B;
C = options.inF.C;
D = options.inF.D;
TR = options.inF.deltat.*options.decim;
microDT = TR./options.decim;
if isfield(options.inG,'homogeneous')
homogeneous = options.inG.homogeneous;
else
homogeneous = 0;
end
[odcm] = prepare_fu... |
5b6d2e250cc0bc96efd429cca9966e4e185b43bf202155e6bcc40014616339f9 | MATLAB | 989 | 48 | function plotPatches( A, cols)
% display receptive field(s) or basis vector(s) for image patches
%
% A(:,i) is i'th patch, assumed to be square
% cols number of columns (x-dimension of grid)
% This file is from pmtk3.googlecode.com
if nargin < 2
[nr nc] = nsubplots(size(A,2));
cols = nc;
end
%PMTKauthor Aa... |
a88f304ee1598c866ad05240d02cb1efed6064c00d8e0c02c0cc856641ada945 | MATLAB | 989 | 30 | function A = multiscale(scale, A)
% Multiplies the 2D slices in a 3D matrix by individual scalars.
%
% function A = multiscale(scale, A)
%
% Given a vector scale of length N and a 3-dimensional matrix A of size
% n-by-m-by-N, returns a matrix A of same size such that
% A(:, :, k) := scale(k) * A(:, :, k);
%
% ... |
e804790ff7187979f3528eb1c098fecbe12315380605034caa7e799b4668f283 | MATLAB | 990 | 40 | function [lab, pos] = read_besa_sfp(filename, uniqueonly)
% READ_BESA_SFP reads a besa style electrode location file.
%
% Use as:
% [lab, pos] = read_besa_sfp(filename, uniqueonly)
%
% Input arguments:
% filename = the file name
% uniqueonly = flag to determine behaviour, to return the positions of the
% ... |
f750b4c79e757036097b69ef60fb3a4b4d14eaa2254e90137b2576ea8d269a08 | MATLAB | 990 | 36 | function sz = tsize(a,idx)
%TSIZE Tensor size of sptenmat.
%
% D = TSIZE(X) returns the size of the tensor being stored as a
% matrix.
%
% M = TSIZE(X,DIM) returns the length of the dimension(s) specified
% by DIM. For example, SIZE(X,1) returns the size of the first
% dimension of the tensor.
%
% See al... |
6453fafe452b51f907af017461ef07a3d7c86a6eb2ceabde29fa2eca968f427e | MATLAB | 991 | 30 | function inputfile = make_or_fetch_inputfile(reproducescript_dir, filename, varname, value)
% MAKE_OR_FETCH_INPUTFILE is a helper function for ft_preamble_loadvar and ft_postamble_savevar, and
% is used for the cfg.reproducescript functionality.
% where to look for the hashes
hashfile = fullfile(reproducescript_dir, ... |
0ba0bc66696ff6b827622634fbd04215db058ecf5a708761733c038e81755e78 | MATLAB | 992 | 33 | % extractEncoderData.m
% Sarah West
% 10/11/21
% Extracts rotary encoder data from .txt or PUTTY .log files and saves them
% as .mat files.
function [parameters] = extractEncoderData(parameters)
% Announce what stack you're on.
message = ['Extracting '];
for dispi = 1:numel(parameters.values)/2
... |
1f947545615d9ee1b7e9012d660a68c4ece36f82d92fc449eef46a56715b3039 | MATLAB | 992 | 13 | function prec_shoot(fn_rp1,fn_rp2,fn_rm)
matlabbatch = {};
matlabbatch{1}.spm.tools.shoot.warp.images = {fn_rp1;fn_rp2}';
matlabbatch{2}.spm.tools.shoot.norm.template(1) = cfg_dep('Run Shooting (create Templates): Template (4)', substruct('.','val', '{}',{1}, '.','val', '{}',{1}, '.','val', '{}',{1}, '.','val', '{... |
70536e1cbb54215689970680169338909cc8437fc3b137540dffa2a3ae0b5527 | MATLAB | 992 | 25 | areatxt{1} = 'lip'; areatxt{2} = 'fef';
rgb = [133 200 226;246 173 205;0 139 0;0 100 0; 255 165 0; 255 165 165]./255;
for iArea =1:2
figure('NumberTitle','off','color',[1 1 1])
xaxis = timevector(rangetoAnalyze);
imagesc(xaxis, 1: size(clustToPlot{iArea},1), -clustToPlot{iArea})
height = 0.5;... |
8f84486c2b5fd4ce2745378df24f3949a23ff5177629cd8504b7c07ef4519f23 | MATLAB | 992 | 19 | function fileList = getAllIntanFiles(dirName)
dirData = dir(dirName); %# Get the data for the current directory
dirIndex = [dirData.isdir]; %# Find the index for directories
fileList = {dirData(~dirIndex).name}'; %'# Get a list of the files
fileList=fileList(cellfun(@any,strfind(fileList,'.int'))); %onl... |
ca4b09a5567f4d3a5d82fa9c268c84b19ce234013f59ca9d5ea97dda7187ad29 | MATLAB | 992 | 21 | function fileList = getAllXFiles(dirName,ext)
dirData = dir(dirName); %# Get the data for the current directory
dirIndex = [dirData.isdir]; %# Find the index for directories
content = {dirData(~dirIndex).name}';
if isempty(content)
fileList = {};
else
fileList = {ls([dirName '\*' ext]... |
df4325036828f16f8a98f2db41383ccf48276ace4f53d56784d003b4808b32a9 | MATLAB | 992 | 44 | function cl = iimg_princomp_display(volInfo,k,overlay,dofigs)
% :Usage:
% ::
%
% cl = iimg_princomp_display(volInfo,k,overlay,dofigs)
%
% Show output from iimg_princomp
%
% :Example:
% ::
%
% cl2 = iimg_princomp_display(volInfo2,1,EXPT.overlay);
tor_fig; plot(volInfo.eigval(:,k),'ko-','LineWidth',2);
%overla... |
62127aee8a8775da5f750656ff6d0891d95e412c41e469ee7c021608a4a1e9f6 | MATLAB | 993 | 40 | function dtdisplay(tree)
%A very simple visualizatiion of the tree, which shows the feature that was
%used to split each node.
figure('color',[1,1,1]);
axis off;
hold on;
width = 10;
height = 10;
markerSize = 10;
markerType = 's';
plot(0,0,markerType,'MarkerSize',m... |
8b6439536b2e255e8bc2895512792148351ae6ce72a4741ecc70eabfee8bebb8 | MATLAB | 993 | 32 | function [totvol tet_vol]=shell_volume(t,p,p0)
% calculates the volume of 3D shell defined in t and p.
% if p0 is provided then it will use it as its fixed point.
% it will return the volume of the shell in totvol and individual vol of
% each tetrahedron formed by p0 and triangular patches of the shell in
% tet_vol
% N... |
a44e61487bd0a343ebc9cb0031a89af9b6d52c48b9c934b217dba4e068a426fa | MATLAB | 993 | 46 | function BaslerTrackPerFrame(movname)
%
% tspdata=load([fbasename '.tsp']);
% tspdata = tspdata(:,1);
%
% if size(tspdata,2)>1
% warning('tsp has data in it! Are You sure you want to continue?')
% % keyboard
% end
%
% nFramesTsp = size(tspdata,1);
% tspnew = [tspdata -1*ones(size(tspdata,1),6)];
readerobj = V... |
a5ea9abd0626ee71c7ba7078e613c8c42b2e616e9c4751b8610a093d52b8cc20 | MATLAB | 993 | 40 | %%% Script that combines two calibration sets together.
dir;
name1 = input('Calibration file name #1: ','s');
name2 = input('Calibration file name #2: ','s');
load(name1);
n_ima_1 = n_ima;
load(name2);
n_ima_2= n_ima;
active_images_2 = active_images;
for kk=n_ima:-1:1,
eval(['X_' num2str(kk+n_ima_1) ... |
d906de95f3b089b6de28ba979a6681e7a9f6d6322ac89a79d620a147b6bd666d | MATLAB | 993 | 35 | function f = exgauss_pdf(y,X)
% EXGAUSS_PDF computes probability density
%
% DESCRIPTION
% Computes probability density for each of the data points in y, given the
% the vector of ex-Gaussian parameters X
%
% SYNTAX
% f = EXGAUSS_PDF(y,X);
%
% EXAMPLES
% Mu = 400;
% Sigma = 50;
% Tau = 100;
% X = [Mu, S... |
f374d81d5b99ecf43fb60631d92c3cf6492c37a3318cd5c0c98e4877fdcda7d9 | MATLAB | 993 | 36 | function [flag] = VBA_isWeird (X)
% // VBA toolbox //////////////////////////////////////////////////////////
%
% [flag] = VBA_isWeird (X)
% check if X contains any Infs, NaNs or non real entries
%
% IN:
% - X: matrix, cell array of matrices, or structure to be checked
% OUT:
% - flag: - true if any element or fiel... |
215adde479bec34d3febabe65f96216ce0d8c8f0034755514fd850ad251b975e | MATLAB | 994 | 24 | %% created by Antoine Wystrach
function [W_KC_MBON] = learn_MB (PN_input_learn, synaptic_plasticity, MB, nb_KC_firing)
% Will create a Matrice for KC output synaptic weight to MBON.
% Simplest learning rules:
% At the begining, all KC_MBON weight = 1 (naive stage);
% During learning, all active KCs switch thei... |
3d5555b0e69b736fe8b235163f48f04f04cd8de4b31e91add6b42f1f17f9a2ea | MATLAB | 994 | 36 | function clf = clfDecTreeTrain( clf, X, Y )
% Train a decision tree classifier.
%
% USAGE
% clf = clfDecTreeTrain( clf, X, Y )
%
% INPUTS
% clf - model to be trained
% X - nxp data array
% Y - nx1 array of labels
%
% OUTPUTS
% clf - a trained binary decision tree clf
%
% EXAMPLE
%
% See also CL... |
4b20abcea8cd097e93a00662ea70811deb18225693929c2585ba681867aedc5f | MATLAB | 994 | 54 | function [A,f,tt] = func_hhspectrum(imf,t,l,aff)
% [A,f,tt] = HHSPECTRUM(imf,t,l,aff) computes the Hilbert-Huang spectrum
%
% inputs:
% - imf : matrix with one IMF per row
% - t : time instants
% - l : estimation parameter for instfreq
% - aff : if 1, displays the computation evolution
%
% outputs:
% - A ... |
ace192bc66439236041b9cf0a9dbb75dc59635450dfd310476bd1b520e9cc330 | MATLAB | 994 | 43 | % AUTHORSHIP
% Primary Developer: Stephen Meehan <swmeehan@stanford.edu>
% Math Lead & Secondary Developer: Connor Meehan <connor.gw.meehan@gmail.com>
% Bioinformatics Lead: Wayne Moore <wmoore@stanford.edu>
% Provided by the Herzenberg Lab at Stanford University
% License: BSD 3 clause
%
function setA... |
e171bde72b5430d61d493c77257f501cd2640b1dfc5fe818d45798920720cd80 | MATLAB | 994 | 35 | function [START_STOP, PEAK] = fitness_detect(traces_C, rois_A, video_Y)
% [START_STOP, PEAK] = fitness_detect(traces_C, rois_A, video_Y)
THR_DF = 1.95;
THR_FIT = 0.28;
DETREND_FRAMES = 45;
DT = 20/30;
video_Y = j_detrend2b(video_Y,DETREND_FRAMES,3);
video_Y(isnan(video_Y) | isinf(video... |
1d1e4a73990a74f9a29c84aac3d3589ea0751a65801577ffbb0410559858e685 | MATLAB | 995 | 48 | %% Run PCA on the height weight data
%
%%
% This file is from pmtk3.googlecode.com
data = loadData('heightWeight'); % data(:,1) = class, 2 = height, 3 = weight
for doStnd = 0:1
X = data(:,2:3);
if doStnd
X = standardize(X);
end
Y = data(:,1);
[n d] = size(X);
[W, Z, evals, Xrecon, mu] = pcaPmtk(X, 1);
maleNdx... |
4df3db4f3aa7de3ef83d0de284477086ca9b8c16f317a3f96c8b405507441740 | MATLAB | 995 | 26 | %-----------------------------------------------------------------------------------------
% Cross-modal decoding of stimulus identity, trained on images and tested on odors
%
% Kehl et al. 2024 (DOI:XX)
% Single-Neuron Representations of Odors in the Human Brain
% Figure 5e
% Author: Marcel Kehl
% License: MIT Lice... |
5be972496f5765f2b65b64b786e4082f9ae3c3bb065721121b09ebf9f8c030f8 | MATLAB | 995 | 39 | %- ------------------- Histogram of volumes at radius -------------------
y = [];
x = [];
n_slices = max(size(volumes));
for ii = 1:n_slices
y = [y, (volumes{ii})];
% increase instances of x corresponding to same y
x = [x, rr(ii).*ones(size(volumes{ii}))];
end
% normalize volumes
y = y .* (dx*dy*dz);
%%
f... |
71488ebba575d7806fd1e7b035b568b8b959da86cf6b9054ea4ec6ba56871297 | MATLAB | 995 | 34 | % run_dt_invariance.m
% Run a simulation (simTauMap6) at varying values of dt.
% clear the workspace
clear;
% define the save directory
save_dir = fullfile('data', 'tm_sweep_true');
[~, ~, ~] = mkdir(save_dir);
% iterate over four ratios
for ratio_val = [1, 5, 10, 50]
for i = 1:5
% load parameters
... |
7839e7cd2f9e663e24e12f0ae6b22092c6cae729f4a906d9bc5f3b628cdf0862 | MATLAB | 995 | 25 | function [pX,gX,pY,gY,X,Y,U] = get_MCMC_predictiveDensity_fb(f_fname,g_fname,u,n_t,options,dim,fb,N,np,lx,ly)
% legacy code
s = warning ('on');
warning ('*** The function `get_MCMC_predictiveDensity_fb` is now deprecated. Please use `VBA_MCMC_predictiveDensity_fb` instead (same syntax).')
warning (s);
% fallback
swi... |
969870af80feae6059a6bcdd1139990aa0f791bf9d56aabad2fe7115439365ef | MATLAB | 995 | 43 | function writenodelm_abaqus_inp(fn,e,p)
% Writes list of nodes 'p' and elements 'e' into Abaqus .inp file format.
% Written By: Hamid Ghadyani
fprintf('Writing data to file... ')
fn = add_extension(fn,'.inp');
[fid,st]=OpenFile(fn,'wt');
if st~=0
error('I/O Error.');
end
fprintf(fid,'*HEADING\n');
fprintf(fid,'... |
9f9ec47ce035a9d3728d6145f6b78739a0d8151f000d1e197579ceafbb37a105 | MATLAB | 995 | 34 | function outpoints = tal2mni(inpoints)
% Converts coordinates to MNI brain best guess
% from Talairach coordinates
% FORMAT outpoints = tal2mni(inpoints)
% Where inpoints is N by 3 or 3 by N matrix of coordinates
% (N being the number of points)
% outpoints is the coordinate matrix with MNI points
% Matthew Brett 2/2/... |
c56c5fa555cc5e01c53ae4cb72c837763dffbb2dd6d27d11f6372aa06f194cc8 | MATLAB | 995 | 38 | function Z = plus(X,Y)
%PLUS Binary addition (+) for tenmat.
%
% See also TENMAT, TENMAT/TENMATFUN.
%
%MATLAB Tensor Toolbox.
%Copyright 2015, Sandia Corporation.
% This is the MATLAB Tensor Toolbox by T. Kolda, B. Bader, and others.
% http://www.sandia.gov/~tgkolda/TensorToolbox.
% Copyright (2015) Sandia Corporat... |
7293c322553f34dc23531a73827963792c31be46d188f26f37df1063e16e9716 | MATLAB | 996 | 44 | function [D,num] = h_dir(directory_name,opt)
if ~exist('directory_name')|isempty(directory_name)
directory_name = pwd;
end
currentpath = pwd;
if ~isdir(directory_name)
[pname, fname] = h_analyzeFilename(directory_name);
else
pname = directory_name;
fname = '';
end
if ~isempty(pname)
... |
f711add90732b78bd136e2c1ff6e328e67cdb058081eb20fa8718d784a6e84d6 | MATLAB | 996 | 26 | %-----------------------------------------------------------------------------------------
% Cross-modal decoding of stimulus identity, trained on odors and tested on images
%
% Kehl et al. 2024 (DOI:XX)
% Single-Neuron Representations of Odors in the Human Brain
% Figure 5f
% Author: Marcel Kehl
% License: MIT Lice... |
1ad9156c51d81ac232a17bd56de90ce02aea3cecbaac1cf359e28b8555300ac6 | MATLAB | 997 | 29 | function skip_number = CBIG_ABCD_proc_get_skip_frame(manufacturer)
%
% skip_number = CBIG_ABCD_proc_get_skip_frame(manufacturer)
%
% This function returns the number of frames to discard given the scanner manufacturer
% The number of frames to discard follows the suggestion on ABCD release notes
%
% Inputs:
% - manu... |
14fb8a30b1ff356132186c6b3fc2bbac69f8c3df40664d9a6be2d4bfd9e7e63f | MATLAB | 998 | 34 | function diskFill( tDir, nGig )
% Fill a harddisk with garbage files (useful before discarding disk).
%
% USAGE
% diskFill( tDir, nGig )
%
% INPUTS
% tDir - target directory to fill with garbage
% nGig - maximum number of gigabytes to write to disk
%
% OUTPUTS
%
% EXAMPLE
% diskFill( 'k:', 500 )
%
% See also
... |
92f890600bf9b9277617388a1bddd1e91f54bd203ffda433da62f43adbbdc40f | MATLAB | 998 | 41 | function X = tenzeros(varargin)
%TENZEROS Create zeros tensor.
%
% X = TENZEROS(SZ) forms a tensor of size SZ with all zeros.
%
% TENZEROS(SZ) is equivalent to TENSOR(ZEROS(SZ(1),SZ(2),...),SZ).
%
% See also TENSOR, ZEROS.
%
%MATLAB Tensor Toolbox.
%Copyright 2015, Sandia Corporation.
% This is the MATLAB Tensor... |
617387cf96348e15bbb5e86fc73cef72be0bcac9cfc38dbe44ffee4db1da05b9 | MATLAB | 999 | 40 | function [path, j1, j2] = hmmViterbiC(logpi, logA, logB)
% Find the most-probable (Viterbi) path through the HMM state trellis.
% logpi(j) = log of initial state distribution
% logA(i,j) = log of transition matrix
% logB(k,t) = log of soft evidence
% * we use log of inputs for compatability with .mex version *
% * cal... |
6cf8095ccf91f6ef5508f3324e476534239408b16ba5d680e6fa47221e88f450 | MATLAB | 999 | 30 | % GQGW Gaussian quadratures using the Golub-Welsch algorithm.
%
% [X,W] = GQGW(ALPHA,BETA,MU) produces the nodes and weights X and W,
% respectively, of the Gaussian quadrature rule corresponding to the
% orthogonal polynomials P with ALPHA(I) = -B(I)/A(I) and
% BETA(I) = SQRT(C(I+1)/(A(I)*A(I+1))), where ... |
872c07fdd9b4d7e43b7c38f5d9172aacca359b7eff13a947efb48effdd8cc03d | MATLAB | 999 | 52 | %% Hinge Loss Plot
%
%%
% This file is from pmtk3.googlecode.com
z = -2:0.01:2; % margin y*f
L01 = double(sign(z)<0);
Lhinge = max(0,1-z);
%Lnll = log(1+exp(-z))/log(2);
Lnll = log2(1+exp(-z));
Lbinom = log2(1+exp(-2*z));
Lexp = exp(-z);
figure; hold on
plot(z, L01, 'k-', 'linewidth', 3);
plot(z, Lnll, 'r--', 'lin... |
3bd8774d509cb22a4bbe6fc607b4e35b80058c1e1bd8c91e88830c5cda87982a | MATLAB | 1,000 | 18 | % [AxesObj, Fcn]=w_RenderSurf('/Users/ycg/Dropbox/ITraAllOnline/ITraAll/ITraDropBox/GoogleDrive/ITraActive/Programs/DPABI/Github/DPABI/DPABISurf/SurfTemplates/fsaverage5_lh_inflated.surf.gii');
% Fcn.AddOverlay('T2.gii'); % Your Overlay Gifti;
% Fcn.SetOverlayThres(1, -3, -1, 1, 3);
% Fcn.SetOverlayColorMap(1, colormap... |
ad2e962204e0030394052afafa7b570f2cddf0fee2413617721e94369e4482fb | MATLAB | 1,000 | 27 | % List of open inputs
% Written by Nanbo Sun and CBIG under MIT license: https://github.com/ThomasYeoLab/CBIG/blob/master/LICENSE.md
addpath(spm_dir)
nrun = 1; % enter the number of runs here
jobfile = {[script_dir '/CBIG_MMLDA_deformation_job.m']};
jobs = repmat(jobfile, 1, nrun);
inputs = cell(4, nrun);
for crun = 1... |
b4e447c740598d31b32651e79dd818d70df63869eca0897b71310011a004f2b5 | MATLAB | 1,000 | 42 | %% Bayesian T test demo
%
%% Paired test
% Data from http://en.wikipedia.org/wiki/Student's_t-test
% This file is from pmtk3.googlecode.com
%PMTKneedsStatsToolbox tcdf, ttest
z = [ 30.02, 29.99, 30.11, 29.97, 30.01, 29.99];
y = [ 29.89, 29.93, 29.72, 29.98, 30.02, 29.98];
% Method based on posterior distribution
x ... |
f38ab89d2dfbd3d5f7c7dd83ebabb501f0a2d4fa90f0ab35268d280fd2d83511 | MATLAB | 1,000 | 38 | function Z = minus(X,Y)
%MINUS Binary subtraction (-) for tenmat.
%
% See also TENMAT, TENMAT/TENMATFUN.
%
%MATLAB Tensor Toolbox.
%Copyright 2015, Sandia Corporation.
% This is the MATLAB Tensor Toolbox by T. Kolda, B. Bader, and others.
% http://www.sandia.gov/~tgkolda/TensorToolbox.
% Copyright (2015) Sandia Corp... |
1620d0f5d4e7e1a26d1bc551366a160643e51b89d86dac9fa6d0768f16703c07 | MATLAB | 1,001 | 41 | function ffine(h)
% ffine -- set paramerters of figure
%
% [Inputs]
% -h:handle
%
%
%
%
% [Ex.]
% close all
% h=figure;
% n=10;
% x=1:n;
% y1=randn(n,1);
% y2=randn(n,1);
% plot( x, y1 );
% hold on;
% plot( x, y2 );
% ffine(h)
%
%
%
% Written By Tomoyasu Horikawa horikawa-t@atr.j... |
2043f118746b3af28a18c091afc6d109120d71f7000c9e9f7a6a97edf6aafd87 | MATLAB | 1,002 | 33 | function [fcr, Bxr] = partialvariance(fc,Bx,covariates)
%% Control for Covariates %%
% covariates are cov1, cov2... covN assumed to be column vectors
%MW 1-3-2020
%%
Nroi=size(fc,1);
Nsubs = size(fc,3);
sizecov = size(covariates,2);
meancovariates = zeros(Nsubs,sizecov);
% mean center covariates
for i=1:sizecov
cov = ... |
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