sha256 stringlengths 64 64 | language stringclasses 28
values | size int32 1 491k | lines int32 1 23.2k | content stringlengths 1 200k |
|---|---|---|---|---|
c8aaa123911b459bb7b921ae86efd912f78a1a6521cd87794acf53285579c482 | MATLAB | 657 | 39 | function displayimages(I,nr,nc,label)
nI = numel(I);
nperpage = nr*nc;
npages = ceil(nI/nperpage);
for page = 1:npages,
clf;
istart = (page-1)*nperpage;
iend = min( page*nperpage, nI );
ni = iend - istart;
for i = 1:ni,
subplot(nr,nc,i);
imshow(I{istart+i});
if exist('label')
if isn... |
0108319dcdd30e596b6bac3d9c7ffe543386bb1b5811746dd0bfc55f8a8fa823 | MATLAB | 658 | 40 | function [err, inds]=decomp_error(v1,v2);
[nchan, n1]=size(v1);
[nchan, n2]=size(v2);
errs=zeros(n2,n1);
for i=1:n1
for j=1:n2
c=v1(:,i)'*v2(:,j)/norm(v1(:,i))/norm(v2(:,j));
%errs(j,i)=sqrt(1-c^2);
errs(j,i)=1-abs(c);
end
end
maxerrs=max(max(errs));
res=zeros(n1,3);
if n1>... |
9bb6f914fd8d1e48cdd30a4bec381a706c37dd0c02548c4b2ea03f38ce849b8f | MATLAB | 658 | 26 | function prob = gmmprob(mix, x)
%GMMPROB Computes the data probability for a Gaussian mixture model.
%
% Description
% This function computes the unconditional data density P(X) for a
% Gaussian mixture model. The data structure MIX defines the mixture
% model, while the matrix X contains the data vectors. Each row ... |
fcb6c0c5c08dedf5e40c9cd80d33ace428b0d4fee3f574850f2a25e1e3049ca6 | MATLAB | 658 | 18 | % Copyright Christopher Fricke, University Leipzig Medical Center,
% Neurology 2024
srcf2 = 'data\prep\coreg_indiv\datscan_normalized';
refnii = single(niftiread(fullfile(srcf2,'Masken','ref2.nii'))); % okzipitale Referenz
refnii(isnan(refnii)) = 0;
refnii(refnii ~= 0) = 1;
d = dir(fullfile(srcf2,'wc*.nii')... |
086448aaf93f4cffb42672b9b5aac35eda1a75fc1ffe8ab9aa2f58c3c296772e | MATLAB | 659 | 21 | function lstnrObj = listenPropsPostSet(obj,props,cbk)
% Listen to multiple properties with a single callback
%
% obj: scalar handle obj to be listened to
% props: cellstr, properties to listen to
% cbk: callback
%
% lstnrObj: scalar listener object, lifecycle not tied to obj
assert(iscellstr(props) && isvector(props))... |
167378b17b028f5bfbcb1e6ce615a9b65415265e7eccbb60b0de926e067c89c4 | MATLAB | 659 | 33 | % Author: Birgit Nierula (Feb, 2020)
% nierula@cbs.mpg.de
function zim_writeLine(fid, headerLevel, mytext)
%% input:
% fid = file identifier
% headerLevel: 1 = title1, 2 = title2, ..., 6 = title6, 0 = regular text
% mytext = text you want to add
if headerLevel > 6
headerLevel = 0;
elseif headerLevel < 1
hea... |
1c901126abb3eebc8f3d7fb6a9c437c6e22d75c29900cd6fe3eb6e5220a536d7 | MATLAB | 659 | 29 | %% Simple test of hmmFitEm with Gaussian observations
%
%%
% This file is from pmtk3.googlecode.com
loadData('speechDataDigits4And5');
data = [train4'; train5'];
d = 13;
% test with a bogus prior
if 1
prior.mu = ones(1, d);
prior.Sigma = 0.1*eye(d);
prior.k = d;
prior.dof = prior.k + 1;
else
pri... |
6fd9d58999799f2c03fb20920eb541c1c256a3843a67ef401144ddf811e85007 | MATLAB | 659 | 30 | function [str, x_bytes, unit] = bytes2str(bytes, precision)
%BYTES2STR Returns the number of bytes in a more readable format.
% Usage:
% bytes2str(bytes)
% str = bytes2str(bytes)
% str = bytes2str(filename)
% str = bytes2str(_, precision)
% [str, x_bytes, unit] = bytes2str(...)
if ischar(bytes)
bytes = g... |
9b2eea4081ba546f7b77faba2d409575a609f942919ba0630e7430de3128c9f5 | MATLAB | 659 | 23 | function fmf_write_frame( fp, data, stamp, data_format )
% fmf_write_frame( fp, data, stamp, data_format )
%
% writes image data for the next frame in the file pointer FP
%
% FP is a file pointer to fmf file with header already written
% DATA is specified by data_format, as below, F_HEIGHT x F_WIDTH
% STAMP is the time... |
8121eb7d620eeedadaa0d7f77a7baf9e54b7dd1180358e35421401240fbbc600 | MATLAB | 660 | 30 | function coordsRot = rotateCoords(coords, rotation)
%
% function coordsRot = rotateCoords(coords, rotation)
%
% assumes the coords are centered around (0,0)
% coords have 2 rows, x and y
% rotation angle in degrees, positive is clockwise
%
% Rachel Denison
% November 2014
rotation = rotation*pi/180;
x = coords(1,:);
... |
afaed30418252ef22fbb06d7c85a2ec6d28da5973c4be6f390691f16776f1271 | MATLAB | 660 | 28 | function [ytest ypredt] = test_predict(xtest, ytest, modelfile)
% --- Load test data
[a, b, c] = size(xtest);
% --- Load model file
load(modelfile, 'Model', 'parm');
%
% --- Estimate prediction error for test data
%
% Time alignment for prediction using embedding input
[tx,ty] = pred_time_index(xtest,p... |
fc056057aebb2cf3d956e78644cfa89b72025128ea71942ae7b250be6d0fb194 | MATLAB | 660 | 23 | function v = repmatIfNec(v,n,name,varargin)
% v = repmatIfNec(v,n,name,varargin)
%
% v: Some value that is either i) a scalar value or ii) a vector of length n
% n: Number of repeats desired/expected
% name: string used in warning
% optional pvs:
% - cell. If true, repmat into a cell vector
%
docell = myparse(vararg... |
41616679919e6f003f3fb340a71e399a7b007f2c5ebd1d5f2b5a952e168aea91 | MATLAB | 661 | 29 | function nboxes = ufmf_read_nboxes(header,frameis)
FRAME_CHUNK = 1;
fp = header.fid;
nboxes = nan(size(frameis));
for i = 1:numel(frameis),
framei = frameis(i);
fseek(fp,header.frame2file(framei),'bof');
% read in the chunk type: 1
chunktype = fread(fp,1,'uchar');
if chunktype ~= FRAME_... |
50261131df83a48a4e17c544b01005327aab642beece6ae0b7a968eb8bf6cbbe | MATLAB | 661 | 22 | function out = averagelocalstrain(X,epsilon)
% averages the strain field epsilon by averaging the epsilon tensor
% values over the nearest neighbours of the off particle
NNacceptance = 2.2; % second minima of g(r)
NNsq = NNacceptance* NNacceptance;
N = size(X,1);
averagestrain = zeros(N,10);
for n0 = 1:N
if epsi... |
a0353d73da1a71ff301cd5ca48129b08b31923d50d0cbaa35787b7ba2473b881 | MATLAB | 661 | 20 | function Params=BasicClassifier
% Options For Collapsing Neural Data Through Time into a feature
Params.TimeCollapseMethod='Null';
Params.NumBins=nan; % Number of TimeSamples to Average across
% function to call to return Training Data
Params.TrainingDataFcn=[];
% Feature Reduction Options
% Params.FeatRed... |
49e4b7daba63992936da889d418feaade92afa3398d215d8615020f7248d5f29 | MATLAB | 662 | 29 | function deriv = dF(W)
global XA XB bA sigma2
X1 = XA;
X2 = XB-repmat(bA,size(XB,1),1);
n1 = size(X1,1);
n2 = size(X2,1);
D12 = dist2(X1*W,X2);
D1 = dist2(X1*W,X1*W);
Matobj11=exp(-D1./(2*sigma2));
Matobj12=exp(-D12./(2*sigma2));
R1=repmat(X1',1,n1);
J1tmp=repmat(X1',n1,1);
J1=reshape(J1tmp,size(X1,2),[]);
vecobj11... |
82fcbfb5c9ad0d694e2387b5d7ef3b2eabadb2d7088674feacbf4942ff3a3788 | MATLAB | 662 | 18 | function transpose(x)
%TRANSPOSE is not defined on sparse tensors.
%
% See also SPTENSOR/PERMUTE.
%
%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 Corporation... |
fc97049888d78af500788129b8235f816e42848880cafe98db96ca627ed0c7fb | MATLAB | 662 | 22 | % HIFIE_SV Solve using hierarchical interpolative factorization for integral
% equations.
%
% Typical complexity: same as HIFIE_MV.
%
% Y = HIFIE_SV(F,X) produces the matrix Y by applying the inverse of the
% factored matrix F to the matrix X.
%
% Y = HIFIE_SV(F,X,TRANS) computes Y = F\X if TRANS... |
0044ce3dd5baae5c5ef5c7a3af3ebf02b4b89a32a548c87f882918bd6da4c8bb | MATLAB | 663 | 28 | % run.m
% Run a simulation (simTauMap6) and save the results.
% clear the workspace
clear;
% define save file name
save_name = 'simulation3';
% initialize simulation parameters
params = genParams(ttot=10, tau_gating=true);
% set tau to a multiple of map6
ratio = 10;
params.tau_on = params.map6_on * ratio;
params.ta... |
02da1dfc086fe2c95f2df972c92e4ddb7cd89b4330d82d142d68192d755f9a49 | MATLAB | 663 | 23 | function [fx] = f_FitzHughNagumo(Xt,Theta,ut,inF)
% FitzHugh-Nagumo membrane potential evolution function
% function [fx] = FitzHughNagumo(Xt,Theta,ut,inF)
% IN:
% - Xt: system's states, ie:
% Xt(1): membrane depolarization (mV)
% Xt(2): proxy for ion channel opening probabilities
% - Theta: evolution ... |
28f33e7fca8207190edc949fc8d86763e4e0d72ab76f50e08da79abebc75191f | MATLAB | 663 | 21 | % This script is an adaptation of Dr. J. Fortin's original source code.
% The original source code can be found at https://github.com/Jfortin1/ComBatHarmonization/tree/master/Matlab
function adjust = itSol(sdat,g_hat,d_hat,g_bar,t2,a,b, conv)
g_old = g_hat;
d_old = d_hat;
change = 1;
count = 0;
n = size(sdat... |
68878b2f17e5bab817905ccc4c5bc1b14209ec22725d13fbdbe5408f258bf474 | MATLAB | 663 | 21 | %% Discriminant Analysis On the Fisher Iris Data
%
%%
% This file is from pmtk3.googlecode.com
loadData('fisherIrisData')
X = meas(51:end, 1:2); % for illustrations use 2 species, 2 features
labels = species(51:end);
[y, support] = canonizeLabels(labels);
types = {'quadratic', 'linear', 'diag'};
for tt=1:length(type... |
97f82e639408020e9de11c367f759b5fe7975c3d5b772a928c04463a26b47850 | MATLAB | 663 | 23 | %% Plot different smoothing kernels
box = @(u) (1/2)*(abs(u) <= 1);
epa = @(u) (3/4)*(1-u.^2).*(abs(u) <= 1);
%tri = @(u) (35/23)*(1-u.^2).^3.*(abs(u) <= 1);
tri = @(u) (70/81)*(1-abs(u).^3).^3.*(abs(u) <= 1);
gauss = @(u) (1/sqrt(2*pi))*exp(-u.^2/2);
fns = {box, epa, tri, gauss};
names = {'Boxcar', 'Epanechnikov', 'T... |
d0bf7a00a64edb139a229d5a70e66df6a3a0685172998ba56546b6c7ad6b0e01 | MATLAB | 663 | 24 | function [plotLabel] = cleanLabels(plotLabel)
% remove the path from the labels, if present
for barNum = 1:length(plotLabel)
barLabel = char(plotLabel(barNum));
ind = strfind(barLabel, '/');
if isempty(ind)
plotLabel(barNum) = {barLabel};
else
plotLabel(barNum) = {barLabel(ind(length(in... |
b67f36077092103e6f5dbdb022e16ef133a8426728f5d26d59610e03af884216 | MATLAB | 664 | 20 | function txt = meg_annotateStats(x,y,stars)
% Draws n.s. and significance stars
% Inputs:
% x: x position
% y: y position, max(fh.YLim) for top of figure
% stars: string, ns, *, **, ***
% Ouputs:
% txt: text handle
if contains(stars,'*')
txt = text(x,y,stars,'EdgeColor','none',...
'FontSize',18,'H... |
82fb461c9d2afe237957e1decc3106a5d2a7b75dff3ebb2bca9a04844befdede | MATLAB | 665 | 22 | function candoit = canGetEuclideanGradient(problem)
% Checks whether the Euclidean gradient can be computed for a problem.
%
% function candoit = canGetEuclideanGradient(problem)
%
% Returns true if the Euclidean gradient can be computed given the problem
% description, false otherwise.
%
% See also: canGetGrad... |
a27317aa48d9b10ea6adbcfa4f5604b93dd47b1ec020afe69f3538765699b87e | MATLAB | 665 | 30 | function S = surface_triangle(a,b,c)
% SURFACE_TRIANGLE Calcultes riangles surface.
%
% SYNTAX:
% [S] = SURFACE_TRIANGLE(A,B,C)
% SURFACE_TRIANGLE(A,B,C)
%
% [S] = SURFACE_TRIANGLE(A,B,C)
% - A, B and C - are m by 2 matrices of (x,y) cartesian coordinates
% of vertices of m triangles.
% - S - ... |
e91d3bb2ffe2e97d4db0110f768310a80d4dfcb372bc57519ca8b862946370e5 | MATLAB | 665 | 23 | function dgm = hmmToDgm(model, T, varargin)
%% Convert an hmm model to a dgm of by unrolling the hmm for T time steps
% All other args are passed directly to dgmCreate
%%
% This file is from pmtk3.googlecode.com
G = mkChain(T);
CPD1 = tabularCpdCreate(model.pi);
CPD2 = tabularCpdCreate(model.A);
localCPD = model... |
f4e14604851072f32e06b14499dc848fa4c53e24a3fa64f9a1a278ed8100e8a7 | MATLAB | 665 | 18 | function ctranspose(x)
%CTRANSPOSE is not defined for sparse tensors.
%
% See also SPTENSOR/PERMUTE.
%
%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... |
16df52fb0fdf51960ebb0437a545b9636431586fbc1f4667212c70adb73ba913 | MATLAB | 666 | 37 | function varargout = drawarena(varargin)
if length(varargin) >= 1&& isstruct(varargin{1}),
r = varargin{1}.r;
x = varargin{1}.x;
y = varargin{1}.y;
varargin = varargin(2:end);
else
if length(varargin) >= 1 && ~isstr(varargin{1}),
r = varargin{1};
varargin = varargin(2:end);
else,
r = 500;
end;
if lengt... |
20d7e8412d338054422c94ef352d8e26577089fae58ebf4fd2aebdf7b43dfff9 | MATLAB | 666 | 34 | function [tffound,f] = seekBigLpos(lpos,f0,df,iTgt)
% lpos: [npts x d x nfrm x ntgt]
% f0: starting frame
% df: frame increment
% iTgt: target of interest
%
% tffound: logical
% f: first frame encountered with (non-nan) label, applicable if
% tffound==true
if isempty(lpos),
tffound = false;
... |
53c2ac53e74907470fcde9fdca9d8d1f8c2a7ba64a5500c4754e1a77e9161f9d | MATLAB | 666 | 29 | % RSKELF_MV_P Dispatch for RSKELF_MV with F.SYMM = 'P'.
function X = rskelf_mv_p(F,X,mode)
% initialize
n = F.lvp(end);
% upward sweep
if bitget(mode,1)
for i = 1:n
sk = F.factors(i).sk;
rd = F.factors(i).rd;
X(sk,:) = X(sk,:) + F.factors(i).T*X(rd,:);
X(rd,:) = F.factors(i).L'*X... |
63c53af3ef7463857237ecaa5f2d76060018eb71f8f0b3bc5f515f07db1a76e3 | MATLAB | 666 | 28 | %% Illustration of a piecewise linear surface
%
%%
% This file is from pmtk3.googlecode.com
setSeed(10);
figure(); hold on;
nsurfaces = 3;
for i=1:nsurfaces
x = randn(10, 1);
y = randn(10, 1);
z = randn(10, 1);
P = [mean(x), mean(y), mean(z)];
[U, S, V] = svd([x-P(1), y-P(2), z-P(3)], 0);
N =... |
a755abb572e670b95778971706cc2d06cc065d8e458c514b1e414494c7a0cda4 | MATLAB | 666 | 31 |
disp('Pipeline_A_ImportData')
Pipeline_A_ImportData
% Insert ID of the procedure
IdProcedure = 99 ;
% Good Parameters for SOM Parametrization
num_runs = 100 ;
som_dims = [ 2 2 ];
epoch_values = 100 ;
% % % % % USED FOR PRETRAINING (FINE TUNING)
% % % % % som_dims = [2 2; 3 3; 4 4; 5 5; 6 6 ; 7 7; 8 8; 9... |
c3c1560ad126c4a0f56134e740d96fb3d4f9737510425ae8280706187e50ec11 | MATLAB | 666 | 31 | function update_showmri(hh,vals,col_limits,mythresh);
colmin=col_limits(1);
colmax=col_limits(2);
np=length(hh);
c=hot;
nc=length(c);
icol=ceil((vals-colmin)/(colmax-colmin)*(nc-1)+eps);
icolb=min([icol';repmat(nc,1,np)]);
icolc=max([icolb;repmat(1,1,np)])';
for i=1:np;
%icol=ceil((vals(i,:)-colmin)/(colmax-c... |
f0b3111608e76ad5d6f848e8f4ba9b0ace32626a6bc4db0ea399627322a47fe2 | MATLAB | 666 | 29 | % RSKELF_SV_P Dispatch for RSKELF_SV with F.SYMM = 'P'.
function X = rskelf_sv_p(F,X,mode)
% initialize
n = F.lvp(end);
% upward sweep
if bitget(mode,1)
for i = 1:n
sk = F.factors(i).sk;
rd = F.factors(i).rd;
X(rd,:) = X(rd,:) - F.factors(i).T'*X(sk,:);
X(rd,:) = F.factors(i).L\X... |
0d902385c0c6e2826561a1903a9697704058fed0ee1da4669e8500b644dc45e2 | MATLAB | 667 | 23 | % QMAP_SQTRI2 Convert a quadrature on the unit square to one on a triangle in
% reference configuration.
%
% [X,Y,W] = QMAP_SQTRI2(X0,Y0,W0,V2,V3) produces quadrature nodes and weights
% [X,Y] and W, respectively, on the triangle with vertices [0; 0], [V2; 0],
% and V3 by mapping from a quadratur... |
c8785c36a3276fe3fe964a20af34831a7de693d181480bc57e7fb5e8bb28f6ee | MATLAB | 667 | 18 | % List of open inputs
% CAT12: Segmentation: Volumes - cfg_files
% 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_segment_job.m']};
jobs = repmat(jobfile, 1, nrun... |
0bbb151fc14d2829bee6c065a221442e80c9df5f7c47aaeb26f63ddf7ddb1a1b | MATLAB | 668 | 22 | function [Mean_Out, STD_Out, SEM_Out, CV_Out, Num_Out]=Mean_STD_SEM_CV(InputData)
InputData(InputData==Inf)=NaN;
if any(isnan(InputData(:)))
Mean_Out=nanmean(InputData);
STD_Out=nanstd(InputData);
Num_Out=sum(~isnan(InputData));
SEM_Out=STD_Out./sqrt(Num_Out);
... |
7d09ab556d522dc39f65e03dd7715fbedd843c18695a3ebd89ae4699e1cd0621 | MATLAB | 668 | 24 | function rms = movingrms(y, win, fs, varargin)
% function to calculate a moving rms of signal y.
% INPUT: - y: vector or matrix to rms
% - win: window in seconds
% - fs: the sampling frequency of signal
% - dim (optional): dimension along which to calculate rms; default
% is 1.
% OUTPUT:... |
9b8de71e99ace3d9e05aa7a490ac26c917438938f5002de8869dfa2d52566125 | MATLAB | 668 | 10 | function nc_spm_deform_using_y_file(infile, y_file, voxsize, interpolation)
SPMJOB.matlabbatch{1}.spm.spatial.normalise.write.subj.def = {y_file};
SPMJOB.matlabbatch{1}.spm.spatial.normalise.write.subj.resample = {[infile, ',1']};
SPMJOB.matlabbatch{1}.spm.spatial.normalise.write.woptions.bb = [-90 -126 -72
... |
631ebc2c479e3bd1840cfc6cc58f1521b6b16e909fa5894a9a1377c37f06b610 | MATLAB | 669 | 35 | function [nll,g,H,T] = LogisticLoss(w,X,y)
% w(feature,1)
% X(instance,feature)
% y(instance,1)
[n,p] = size(X);
Xw = X*w;
yXw = y.*Xw;
nll = sum(mylogsumexp([zeros(n,1) -yXw]));
if nargout > 1
if nargout > 2
sig = 1./(1+exp(-yXw));
g = -X.'*(y.*(1-sig));
else
g = -X... |
7a91ea871f353575b38b45a1b680f7c70fa3ca9121cdaeb653d482eb8d00f9b0 | MATLAB | 669 | 32 | function StatVal=w_PToStat(P, StatOpt)
TestFlag=StatOpt.TestFlag;
if isempty(TestFlag)
StatVal=[];
end
if isfield(StatOpt, 'Df')
Df1=StatOpt.Df;
end
if isfield(StatOpt, 'Df2')
Df2=StatOpt.Df2;
end
if StatOpt.TailedFlag==1
Scale=1;
elseif StatOpt.TailedFlag==2
Scale=2;
else
error('Invalid Tailed... |
8e72b7f19644985ea5ed88dc0cda3f54e54b8af3e71e07961f161372645a6362 | MATLAB | 669 | 27 |
function maskUnmask(self,src,~)
if self.verbosity > 9
disp(mfilename)
end
if isempty(self.channel_to_work_with)
return
end
if src == self.handles.mask_all_control
self.mask(:,self.channel_to_work_with) = 0;
elseif src == self.handles.unmask_all_control
self.mask(:,self.channel_to_work_with) = 1;
elseif src ==... |
c56b8b5cd727eea95adb9556318a16e7b4dfe070e42a182b8d732a1d1db602b2 | MATLAB | 669 | 25 | function pAdjusted = HolmBonferroni(p, alpha)
if nargin < 2
alpha = 0.05;
end
% Sort and iterate
p_vec = p(:);
[p_sorted,sort_idx] = sort(p_vec);
current_multiplier = sum(~isnan(p_vec));
pAdjusted = ones([length(p_vec), 1]);
for i = 1:length(p_vec)
pAdjusted(i) = p_s... |
1b678b2a84e5412872f66dcbe411552241d3672369d099201424f912ddd76085 | MATLAB | 670 | 25 |
% _ _
% ___ _ __ __ _| |__ ___ ___ _ __| |_
% / __| '__/ _` | '_ \/ __|/ _ \| '__| __|
% | (__| | | (_| | |_) \__ \ (_) | | | |_
% \___|_| \__,_|_.__/|___/\___/|_| \__|
%
% this is a plugin for crabsort.m
% computes the PCA on the spike shape, and then uses the top 2 ... |
21b5b0a58e1e89e2ae45812c04c739ace18794b94a868c5644a3a78691abbe69 | MATLAB | 670 | 25 | function h1 = JoinUpErrorPoints(h, toJoin, plotargs)
% function h = JoinUpErrorPoints(h, toJoin)
% Join up pairs of errorbarplot points with lines
%
% Inputs:
% h: errorBarPlot handles for lines
% toJoin: matrix of pairs of points to join up [n x 2]
% plotargs: cell array of name-value pairs to pass into plot()
... |
8dd52ccaae9c2ee38dd5fc60ad6af71b932feaa2e4bf12f7fa282114d30d37ea | MATLAB | 670 | 25 | function saveTifSequence(imgvol, outputDirectory)
%SAVE3DTif: Save a 3D volume into an image sequence. To be used in the
%case of the vol being too big to be loaded as a single 3D tif
%set the minimum to zero
imgvol = imgvol - min(min(min(imgvol)));
%set the max to max uint16
img... |
c7a1968cdbd401dd44d91f8a13b15cc5ee636914d29f036c4c65ee888718acc5 | MATLAB | 670 | 28 | % 2024-09-16: voxel-wise dictionary lookup function using dot product
% matching
% Inputs: x - signal vector over 3 echoes
% b1 - relative B1 value of voxel
% dict = struct containing dictionary, made by dict_create.m
% Shaihan Malik, King's College London, 2024
function [t2,s0] = dict_match(x,b1... |
d6da0d6778e3eb9d39df6ca87e196e6028683c71518e7184675562dc8892fcca | MATLAB | 670 | 26 | function options = TMapperOpts(k, resolution, gain, verbose)
% Not implemented yet
assert(false, "Not implemented yet")
if nargin < 4
verbose = false;
end
options = struct;
options.verbose=verbose;
options.preprocess_type = 'none';
options.dist_type = 'euclidean';
options.prelens_type = 'wtd-pen';
options.prelens... |
11d126d5f49fc70fc92a48aa93e2f5af9e94cf96aefe3e1fbd177cfc68dc0d80 | MATLAB | 671 | 26 | function [p,pt] = permtest(x1,x2,n)
if ((size(x1) ~= size(x2)) | (x1 == x2))
p = NaN;
pt = NaN;
return;
end
diffs = zeros(n,1);
for i = 1:n
x = [x1 x2];
sel = randi(2,length(x1),1);
xt1 = zeros(length(x1),1);
xt2 = zeros(length(x2),1);
... |
2ec6ee90c21c26f8db49b31cf74367aaccfb8dd23d35064ffb6fbe996e934a81 | MATLAB | 671 | 20 | function n = nnz(a)
%NNZ Return number of nonzeros in a sptenmat.
%
% nnz(A) returns the number of nonzeros in A.
%
% See also SPTENMAT.
%
%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/TensorToolb... |
33795fb085bce0a0ee837d83bb6bc99e728b8544caf05800154810731b1d2f23 | MATLAB | 671 | 23 | function maxLambda = groupLassoMaxLambda(groups, X, y)
% Find the largest regularizer that drives all params to 0
% This is given by
% max_groups sqrt( sum_{i in g} gradient(g,i)^2 )
% where the gradient is evaluated at the all 0s weight vector.
% We exclude group 0 (representing the unregularized terms)
% This file... |
3fcee72ad562a6981b9e662a630346ed35fb131749bda8de7294c434380fd08b | MATLAB | 671 | 27 | function p = circ_iqr(alpha)
% CIRC_IQR - estimates the interquartile range of circular data
%
% INPUT & OUTPUT
% -------------
% alpha - input data (in radians, not binned)
% p - estimated iqr
%
% METHOD
% -------------
% For normal distributions IQR can be estimated from the
% standard deviation of the sample, s... |
7244544ca2a14aaa094810d40e55c7e701a1348ad346ee1f73e05179863e7593 | MATLAB | 671 | 32 | function logp = gaussInvWishartLogprobBayes(arg1, arg2, arg3, arg4, arg5)
% logp(i) = int_S log p(X(i, :) | model)
% logp = gaussInvWishartLogprobBayes(model, X) OR
% logp = gaussInvWishartLogprobBayes(mu, Sigma, dof, k, X)
%%
% This file is from pmtk3.googlecode.com
if isstruct(arg1)
model = arg1;
X = arg2;
... |
76eb4a945cb43d4860254e45e356c04f05f2f295283a5426654b286e0957e72a | MATLAB | 671 | 27 | function [B,src_indices,dest_indices]=noncircshift(A,offsets)
%Like circshift, but shifts are not circulant. Missing data are filled with
%zeros.
%
% [B,src_indices,dest_indices]=noncirchift(A,offsets)
%
%B is the resulting array and the other outputs are such that
%
% B(dest_indices{:})=A(src_indices{:})
siz=size(A)... |
7ed4db9d89fb49c334b574f7345db6b8ea83328259faa94b18f423e485224192 | MATLAB | 671 | 16 | function [p,Z]=HumanOdorRep_two_proportion_ztest(n1pos, n1, n2pos, n2)
% function [p,Z]=HumanOdorRep_two_proportion_ztest(n1pos, n1, n2pos, n2)
% calculate two-proportion z-test
%
%-----------------------------------------------------------------------------------------
% Kehl et al. 2024 (DOI:XX)
% Single-Neuron Repre... |
2f2a1e889e99ed989459d34537d570e87927e1554086c8fa7773ae6b2bab2398 | MATLAB | 672 | 27 | % HIFDE_MV_NN Dispatch for HIFDE_MV with F.SYMM = 'N' and TRANS = 'N'.
function X = hifde_mv_nn(F,X)
% initialize
n = F.lvp(end);
% upward sweep
for i = 1:n
sk = F.factors(i).sk;
rd = F.factors(i).rd;
T = F.factors(i).T;
if ~isempty(T), X(sk,:) = X(sk,:) + T*X(rd,:); end
X(rd,:) = F.fact... |
57ef8d4fc79f437bb5f965f335d6fbb76dcb220f11f24837dd722a3a69570804 | MATLAB | 672 | 24 | % INPUTS:
% run_num_list is the index list of the experiment for the specified sample
function success_code = batch_memory_errors()
% get max_jobs
loadParameters;
run_num_list = [1]
run_num_list_size = length(run_num_list);
max_jobs = run_num_list_size;
arg_list = {};
postfix_list = {};
... |
6c763f7a96f7c927f37d6a869a25158ca030cd69a22c26256e1b077bd3e2da05 | MATLAB | 672 | 18 | function Dlocal=jacobiandet_transform_2d_double(Ox,Oy,Isize,dx,dy)
% Determinant of the Jacobian of the transformation grid
%
% [Iout,Tx,Ty]=bspline_transform_2d_double(Ox,Oy,Isize,dx,dy)
%
% Inputs,
% Ox, Oy : are the grid points coordinates
% Isize : The size of the input image [m n] or in 3d [m n k]
%... |
7abfcc9e340653b683ba020c08bbafac8e0d597708bbf26e6fa00c0d88c88b7b | MATLAB | 672 | 29 | %% Simple test of hmmFit with tied mix Gauss observations
%
%%
% This file is from pmtk3.googlecode.com
loadData('speechDataDigits4And5');
data = [train4'; train5'];
d = 13;
nstates = 2;
nmix = 3; % must specify nmix
model = hmmFit(data, nstates, 'mixGaussTied', 'verbose', true, ...
'nRandomRestarts', 2, 'ma... |
818eac42264b2eb83b4cc87561d42490eb3fa1992ea64768d82859a76b3bc776 | MATLAB | 672 | 31 | function d = mahalsqrt(C,P)
if ndims(C) == 3
n = size(C,2);
d = zeros(1,n);
for i = 1:n
d(i) = mahal_internal(squeeze(C(:,i,:)),nanmean(squeeze(P(:,i,:)),1));
end
else
d = mahal_internal(C,P);
end
end
function d = mahal_internal(C,P)
[C,P] = eliminate... |
8c40f458072857b0233e1a5e1e1fc9638ef9fbe446b3eed204e3b1e2ca9db6f7 | MATLAB | 672 | 27 | % HIFDE_SV_NN Dispatch for HIFDE_SV with F.SYMM = 'N' and TRANS = 'N'.
function X = hifde_sv_nn(F,X)
% initialize
n = F.lvp(end);
% upward sweep
for i = 1:n
sk = F.factors(i).sk;
rd = F.factors(i).rd;
T = F.factors(i).T;
if ~isempty(T), X(rd,:) = X(rd,:) - T'*X(sk,:); end
X(rd,:) = F.fac... |
acc8b26ab57053c7672d344de530584c4981756ad50807346b3a68d15a590bd2 | MATLAB | 672 | 29 | %% Demonstrate perfect elimination ordering
% Based on Lauritzen's Saint-Flour notes 2006
%% Non-chordal Example from Fig 3.6
% This file is from pmtk3.googlecode.com
G = zeros(7,7);
G(1,[2 3 4])=1;
G(2,[1 3 6])=1;
G(3,[1 2 4 5 7])=1;
G(4,[1 3 5])=1;
G(5,[3 4])=1;
G(6,[2 7])=1;
G(7,[6 3])=1;
assert(isequal(G,G'));
%... |
eac9fe618894ab02553c63115d6a19ed9ed855f6187a1d8f7541a1728b3df555 | MATLAB | 672 | 29 | % general_settings for LIP single trial paper
xLimsSL = [0 0.6];
xLimsRL = [-0.3 0.1];
xLimsView = [0 0.4];
fontSize = 6;
sFont=6;
colorsYeBl = {{[102 51 0]/255, [204 102 0]/255, [255 128 0]/255,...
[255 178 102]/255, [255 229 204]/255, 0.6118*[1 1 1]},...
{[0 51 102]/255, [0 102 204]/255, [... |
1291ac08af06239f40fd56640633f081d9b19326ec5fe4ce697fa9fc01d8fee0 | MATLAB | 673 | 1 | function R=simple_egfit(data)
% version 2.1 26/02/07
% (c) Yves Lacouture, Universite Laval
tau=std(data).*0.8; % reasonable starting value for tau
mu=mean(data)-tau; % reasonable starting value for mu
sig=sqrt(var(data)-(tau^2)); % reasonable starting value for sig
pinit = [mu sig tau]; ... |
24af2d4739b8af1f488e0fe485126b44a40dd507fcc1946ab86692b741f2c30e | MATLAB | 673 | 28 | function [fx,dF_dX,dF_dTheta] = f_Lorenz(Xt,Theta,ut,inF)
% Lorenz chaotic evolution function
deltat = inF.deltat;
x = Xt;
rho = Theta(1);
sigma = Theta(2);
beta = Theta(3);
fx = zeros(3,1);
fx(1) = sigma.*(x(2)-x(1));
fx(2) = x(1).*(rho-x(3))-x(2);
fx(3) = x(1).*x(2) - beta.*x(3);
fx ... |
2a3fbecae7c65a86b03723f09c1f4aba6271f66c04b3cffcf6c63a14cf72e789 | MATLAB | 673 | 27 | % HIFDE_MV_SN Dispatch for HIFDE_MV with F.SYMM = 'S' and TRANS = 'N'.
function X = hifde_mv_sn(F,X)
% initialize
n = F.lvp(end);
% upward sweep
for i = 1:n
sk = F.factors(i).sk;
rd = F.factors(i).rd;
T = F.factors(i).T;
if ~isempty(T), X(sk,:) = X(sk,:) + T*X(rd,:); end
X(rd,:) = F.fact... |
9070197a1b0d986003e45270f1bdc71e967538a342c290ca52d49376892b1073 | MATLAB | 673 | 24 | function M = classConfMat(ytrue, yhat)
% Make a class confusion matrix
% M(truth, est) = num times truth gets labeled as est
% result is an array with starting index of 1, so you have to figure out
% labels separately. It will do all possible integer classes, i.e. if you
% have two classes 1 and 1000 don't use this fun... |
bb9a9a32d7fe8bfbbbc71d3b75978a2f24838e05b47c5d071aecf7d7286f5793 | MATLAB | 673 | 20 | figure('color', [1, 1, 1], 'position', [360 50 600 400]); hold on;
rgb = [112 112 112; 26 127 187]/255;
nUnits = nan(2,2);
for iArea = 1: 2
nUnits(iArea,1) = size(this_roc{iArea,1},1);
mean_roc = mean(this_roc{iArea,1},1);
h(iArea)=plot(rocaxis, mean_roc, 'Color',rgb(iArea,:),'LineWidth',10);
... |
d94f3ed0e6db8042152b511203f33e06d4dfbe3c65acf13a95ad1f77f33b15c1 | MATLAB | 673 | 31 | function SymbolicCopyStephenData(srcdir,destdir,varargin)
[regexpexclude] = myparse(varargin,'regexpexclude',{});
[~,n] = myfileparts(srcdir);
destdir1 = fullfile(destdir,n);
if ~exist(destdir1,'dir'),
mkdir(destdir1);
end
[fs,infos] = mydir(srcdir);
for i = 1:numel(fs),
if ~infos(i).isdir,
[~,n] = myfilepa... |
e787c34a0c2cf14376ff4d7f0385e0c6f8700780ac6ca780a7ba175fcfbfa914 | MATLAB | 673 | 27 | % HIFDE_SV_SN Dispatch for HIFDE_SV with F.SYMM = 'S' and TRANS = 'N'.
function X = hifde_sv_sn(F,X)
% initialize
n = F.lvp(end);
% upward sweep
for i = 1:n
sk = F.factors(i).sk;
rd = F.factors(i).rd;
T = F.factors(i).T;
if ~isempty(T), X(rd,:) = X(rd,:) - T.'*X(sk,:); end
X(rd,:) = F.fa... |
f5b98bd1405b5f63b7b680c88dbea8af0b0012603d962297b63d66fdd1f6fbb3 | MATLAB | 673 | 14 | % Can we detect differential expression between genes?
seed = 0; randn('state', seed); rand('state', seed);
ngenes = 100; nsamples = 2;
mu1 = 0; s1 = 1; mu2 = 5; s2 = 1;
%ndx = 1:floor(ngenes/2);
ndx = find(rand(1,ngenes) > 0.5);
truth = zeros(1,ngenes);
truth(ndx) = 1; % these entries are differentially expressed
Xc... |
f6e17ff04d35dddf0f12435c44f6e30e3cd3a9000e96d9f19a70b158d2e05c55 | MATLAB | 674 | 15 | %both finds the keys and converts them within the bounds of the tile
%by subtracting the y_min and x_min, which is necessary for transform calcs
function relevant_keys = findRelevantKeys(keys, y_min, y_max,x_min,x_max)
relevant_keys = {}; relevant_ctr = 1;
for idx=1:length(keys)
if keys{idx}.y>=y_min &&... |
70d947d885548d8923d8789259484f516410544638a2253b9ca8374cd19b5e47 | MATLAB | 675 | 30 | function s = structsetleaf(s,sset,varargin)
% Set values for leaves of nested struct
%
% s: scalar struct (typically nested)
% sset: scalar struct with fields/vals to replace
%
% structsetleaf recursively sets all leaf nodes matching fields of sset to
% their corresponding new values.
verbose = myparse(varargin,...... |
81b27da73ea3ada2b5c78912eccfa2b986086d71ba7c73397888d6ed07dfbaa1 | MATLAB | 675 | 12 | J = load('~/bransonlab/PoseTF/headTracking/FlyHeadStephenCuratedData.mat');
for ndx = 1:numel(J.vid1files),
J.vid1files{ndx} = ['/groups/branson/bransonlab/mayank/' J.vid1files{ndx}(19:end)];
J.expdirs{ndx} = ['/groups/branson/bransonlab/mayank/' J.expdirs{ndx}(19:end)];
J.vid2files{ndx} = ['/groups/branson/bransonlab/... |
b11ff4de20903b00351f53e8c5ed78de5846f5dafe4f0c80af8e2ff8ffb4fa3a | MATLAB | 675 | 20 | function n = ndims(t)
%NDIMS Number of dimensions for a ktensor.
%
% NDIMS(T) returns the number of dimensions of tensor T.
%
% See also KTENSOR
%
%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/Ten... |
e8243353d6000eaeed9eb344c1fcca691098e4baa01bd3ebc3035f41ed7d8f9a | MATLAB | 675 | 36 | function LAN = mean_freq(LAN,dim)
% v.1.0.1 24.11.2009
%
% LAN = ; signal with fields 'freq' in cell {trail x elect} with matrix [freq x time]
% dim = ; dimention of outcome
% if dim = 3 ; matrix 3d [freq x time x elect]
% if dim ~= 3 ; cell 1d {1, elect} with matrix 2d [freq x time]
%
%
% P.Bill... |
3b079c2bd2676a12ac053a885a855ba1487fd45d7715202a62d9eddb28365309 | MATLAB | 676 | 19 | % Sequentially compute N best list for an HMM
% See "Sequentially finding the N-Best List in Hidden Markov Models"
% Nilsson and Goldberger, IJCAI 2001
% We do the example in sec 3.2
%PMTKinprogress
initDist = [0.6; 0.4];
transmat = [0.6 0.4; 0.2 0.8];
obsmat = [0.9 0.1; 0.3 0.7];
y = [1 1 2 2 2 2 1 1 2 2]; % n=1, y=... |
8c45947c301bbf5e6567f33de9430d08b506f7c9b91f2adecd22d559dd525613 | MATLAB | 676 | 21 | function a = tt_subsubsref(obj,s)
%TT_SUBSUBSREF Helper function for tensor toolbox subsref.
%
%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 Corporation. Under... |
940deca26fea6548fa0d6ae087f270fc15b4f46a858395f304b98e1a00d125a7 | MATLAB | 676 | 25 | function h_openGroup3(handles, filename)
global h_img3;
[currentInd, handles, currentStruct, currentStructName] = h_getCurrendInd3(handles);
[pname, fname, fExt] = fileparts(filename);
if isempty(pname)
pname = pwd;
end
% try
if exist(filename, 'file')
load(filename,'-mat');
... |
9d7e41b4a4c996cf206b068c3926ce4e6a4dca8197927d749c4d8f6a4af4cf90 | MATLAB | 676 | 27 | % HIFDE_MV_NC Dispatch for HIFDE_MV with F.SYMM = 'N' and TRANS = 'C'.
function X = hifde_mv_nc(F,X)
% initialize
n = F.lvp(end);
% upward sweep
for i = 1:n
sk = F.factors(i).sk;
rd = F.factors(i).rd;
T = F.factors(i).T;
if ~isempty(T), X(sk,:) = X(sk,:) + T*X(rd,:); end
X(rd,:) = F.fact... |
140fb6e2544f4e2b4cd39e4c0c1c4cf69b6667853cd46aac80acd02c6dcdd7a7 | MATLAB | 677 | 26 | function [ax, b, p] = plotExplainedVar(explained)
%PLOTEXPLAINEDVAR Pretty plot PCA explained variance.
% Usage:
% plotExplainedVar(explained)
% [ax, b, p] = plotExplainedVar(explained)
%
% See also: pareto2, plotyy
if isstruct(explained) && isfield(explained,'explained'); explained = explained.explained; end
[ax... |
2a66c536fed181df41e6b560693fb4fc3bf71aa8e9c8045292f96d5305178c83 | MATLAB | 677 | 15 | %%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
%%% f4_load_forward_data.m %%%
%%% Load the forward data associated to a dipole if it exists %%%
%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
clear Ptot;
try... |
340b3ce7ed90a71d42c0875a930a0217b30aaed66b68b6cadb9ef7dfe720f07e | MATLAB | 677 | 35 | function Name = TSeventname(EventNumber)
% finds the name for an event, given its numerical code. In other words,
% this function reads the event code dictionary backwards. This is useful
% when troubleshooting
%
% syntax: Name = TSeventname(EventNumber)
% or: TSeventname(EventNumber)
global Experiment
Name = 'not fo... |
48edd98d497101f75d6ffb5159ec04657734ef028a59d02ffdce6351274f2b30 | MATLAB | 677 | 26 | function padded = insertUnitBels(nodeBels, visVars, hidVars)
% We insert unit factors for the clamped vars to maintain a one-to-one
% corresponence between cell array position and domain, and to return
% consistent results regardless of the inference method.
% This file is from pmtk3.googlecode.com
if isempty(visVars... |
64abb72c7b26ee1516a1613dec2845f40f33b50b4739a5b6f3c58e96c930364b | MATLAB | 677 | 36 | function S = discreteSample(arg1, n)
%% Sample from a discrete distribution
%
% S = discreteSample(model, n); OR
% S = discreteSample(T, n);
%
% T is of size K-by-d where K is the number of states and d is the number
% of distributions; n is the number of samples. Each *column* of T sums to
% one.
%
% model, if spe... |
722b0f7b7be0b0f0def57b7e5b1eae337ee3a0cbac38d519ddd356bb194e61db | MATLAB | 677 | 25 | function facs = addEvidenceToFactors(facs, evidence, doSlice)
%% Slice (or clamp) multiple factors according to a sparse observation vector
%
% This file is from pmtk3.googlecode.com
if nargin < 3, doSlice = true; end
if doSlice
fn = @tabularFactorSlice;
else
fn = @tabularFactorClamp;
end
if isempty(evidence... |
53bc759cbb19d659169cb65c915efb4d9f537e7a735162a06f8a96ec4078fa8a | MATLAB | 678 | 29 | % succeeded = save_tracks(trx,matname,...)
% optional arguments:
% 'doappend' = false
% 'varname' = trx
function succeeded = save_tracks(trx,matname,varargin)
[doappend,varname,timestamps] = myparse(varargin,'doappend',false,'varname','trx','timestamps',[]);
succeeded = false;
if isfield(trx,'f2i'),
trx = rmfield(... |
7e5c4f8c918f0c18f3fc9a784582c51a4ab66c938ccd2406ad779f396b146803 | MATLAB | 678 | 25 | function lc = GetTDRcmap(settings,flp)
if any(settings==[1 2 9:12 13:16])
lc = redblue(7);
else
lc = parula(8);
lc(1,:) = [];
for kk = 1:3
lc(kk,:) = GetShade(lc(kk,:),[1 1 1],kk,5);
lc(7-kk,:) = GetShade(lc(7-kk,:),[1 1 1],kk,5);
end
end
if flp==1;lc(1:4,:) = [];end
% if any(s... |
b65f69b9022a9fb7578c2f9a1ae4217b3dd444e67310d814e553d274b8330683 | MATLAB | 678 | 28 | function str = printor(strs, quote)
% PRINTOR prints a single or mutiple strings as "x1, x2, x3 or x4". If there is
% only one string, that string is returned without additional formatting.
%
% See also PRINTAND
if nargin<2
quote = false;
end
if quote
if numel(strs)>2
str = sprintf('''%s'', ', strs{1:(end-2)... |
be459362aa9912ad3146bf47ca3bcb062761b95c5a50a4b3b9e3c402e32d2995 | MATLAB | 678 | 28 | function matches = dir_regex(path, expression, return_paths)
%DIR_REGEX Returns contents in the path matching a regular expression.
% Usage:
% matches = dir_regex(path, expression)
% matches = dir_regex(path, expression, true) % returns full paths
%
% See also: regexp, dir_ext, dir_paths
% Default: returns just fi... |
4ee8d1c6fe1246d9f42f9b915cae04314cfdbc624d8f9d866077acb18f268e6a | MATLAB | 679 | 24 | function Y = SimPopData(Xsamp,BB,d, n,T,N)
% Function for generating observations from the BTDR model.
% INPUTS:
% Xsamp = [N x P] matrix of regressors on each trial
% BB = [P x 1] cell array where each element is a n x T matrix of coefs
% d = [n x 1] vector of noise variances for each neuron
% n = number ... |
592808daf653f047e2f0c9d9bae6352bf35e6b66621a0a7c698a6ccae94dbf14 | MATLAB | 679 | 28 | % HIFDE_MV_H Dispatch for HIFDE_MV with F.SYMM = 'H'.
function X = hifde_mv_h(F,X)
% initialize
n = F.lvp(end);
% upward sweep
for i = 1:n
sk = F.factors(i).sk;
rd = F.factors(i).rd;
T = F.factors(i).T;
if ~isempty(T), X(sk,:) = X(sk,:) + T*X(rd,:); end
X(rd,:) = F.factors(i).L'*X(rd,:)... |
a97e99cb9cf64a3290c0f9fbce830dc52afd8d9fb8255688fd778721a5529518 | MATLAB | 679 | 28 | % HIFDE_SV_H Dispatch for HIFDE_SV with F.SYMM = 'H'.
function X = hifde_sv_h(F,X)
% initialize
n = F.lvp(end);
% upward sweep
for i = 1:n
sk = F.factors(i).sk;
rd = F.factors(i).rd;
T = F.factors(i).T;
if ~isempty(T), X(rd,:) = X(rd,:) - T'*X(sk,:); end
X(rd,:) = F.factors(i).L\X(rd,:)... |
bab472cbcdf982d6ceaeaf302d7a071b54501b5e4fdd60736ee2b961e91f2b13 | MATLAB | 679 | 14 | figure('color', [1 1 1]);
% requires distributionPlot https://www.mathworks.com/matlabcentral/fileexchange/23661-violin-plots-for-plotting-multiple-distributions-distributionplot-m
distributionPlot([fef_accuracies(:,1), lip_accuracies(:,1), fef_accuracies(:,2), lip_accuracies(:,2)],'color',[.6 .6 .6],'showMM', 2),hol... |
d69207b56ebd9d37b7abe0763aef67b1dcf35124d4941d299770f6ba12689179 | MATLAB | 679 | 21 | classdef FrameDecimationVariable < FrameDecimation
properties
getDecimationHookFcn % function with sig dec = getDecimationHookFcn(lObj)
end
methods
function obj = FrameDecimationVariable(fcn)
obj.getDecimationHookFcn = fcn;
end
function dec = getDecimation(obj,labelerObj)
assert(isst... |
2e2612186e00d676c8b53c505f27398deb64f22e3c26a33e153ecdbd3843bac0 | MATLAB | 680 | 35 | function varargout = scl_slope(varargin)
% Format
% For getting the value
% dat = scl_slope(obj)
%
% For setting the value
% obj = scl_slope(obj,dat)
% _______________________________________________________________________
% Copyright (C) 2008 Wellcome Trust Centre for Neuroimaging
%
% $Id$
if nargin==2,
varar... |
84cdf35469f931cc53da7444124601f37a815428252fc017224263ace1ac986e | MATLAB | 680 | 26 | dataMatrix = synapseAnalysisData.dataMatrix;
xCoordinates = synapseAnalysisData.xCoordinates;
yCoordinates = synapseAnalysisData.yCoordinates;
dataDim = size(dataMatrix);
numSynapses = dataDim(1);
numImagingDays = dataDim(2);
global h_img3
for i = 1:numImagingDays
iterInstance = ['I' num2str(i)];
caxes =... |
9d4b99cf084e8f2ec8f722684b6e6044dd956cfab652430f6d8eac01d2acf1c8 | MATLAB | 680 | 22 | function [bool_int, d, coords] = ut_RayIntersect(point, dir, P, t)
% using metres does not seem to work, probably because of some
% tolerance parameters in TriangleRayIntersection
% We convert everything to mm, and then reconvert
pp = repmat(1e3*point,size(t,1),1);
dd = repmat(dir, size(t,1),1);
... |
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