sha256 stringlengths 64 64 | language stringclasses 28
values | size int32 1 491k | lines int32 1 23.2k | content stringlengths 1 200k |
|---|---|---|---|---|
40bbbeb5d48305eb57dcc0fece991ce075bd46df6c22423b576c17291b806ec0 | MATLAB | 800 | 25 | function [converged] = convergenceTest(fval, previous_fval, threshold, warn)
% Check if an objective function has converged
%
% We have converged if the slope of the function falls below 'threshold',
% i.e., |f(t) - f(t-1)| / avg < threshold,
% where avg = (|f(t)| + |f(t-1)|)/2
% 'threshold' defaults to 1e-4.
% This ... |
d63a96ce531b910567d92660aec8a83768adb0d0f6746e8fd75b792adffed834 | MATLAB | 800 | 24 | function e = end(X,k,n)
%END Last index of indexing expression for tensor.
%
% The expression X(end,:,:) will call END(X,1,3) to determine
% the value of the first index.
%
% See also TENSOR, TENSOR/SUBSREF, END.
%
%MATLAB Tensor Toolbox.
%Copyright 2015, Sandia Corporation.
% This is the MATLAB Tensor Toolbox b... |
0a9dcc6078e126207d5ba738e912d4c8c76ff2cc0aea0491e70c390ff7996aa9 | MATLAB | 801 | 34 | function smat = sprintfmat(s,varargin)
% check argument sizes
if nargin == 1,
smat = s;
return;
end;
if size(varargin{1},1) == 1 & size(varargin{1},2) > 1,
varargin{1} = varargin{1}';
end;
n = size(varargin{1},1);
for i = 2:nargin-1,
if size(varargin{i},1) ~= n & size(varargin{i},2) == n,
varargin{i} = var... |
1486afc11a51d9299ed2eb6fc1bda617fc2506b473006607bf0b32fd0bb62261 | MATLAB | 801 | 27 | function [ max_overlap ] = get_cell_nucleus( cell, nucleus, name )
% Input: cell channel, nuclei channel
take_maximal_volume = 1;
max_overlap = volume_filtering( cell.*nucleus, take_maximal_volume);
% % ----------------- Watershed segmentation
% [ nuclei_seg ] = segment_nuclei( nucleus );
%
% ... |
6b6c221df5b8bb89036119095d271689d9ad380fb6e912efb0c98686ca3949c7 | MATLAB | 801 | 28 | function Y = linearTransform(X,X_range,Y_range)
if (nargin < 2) || isempty(X_range)
X_range = minmax(X(:)');
end
if isempty(Y_range)
error('linearTransform:Y_range','Y_range cannot be emtpy');
end
if isempty(X)
error('linearTransform:X','X cannot be emtpy');
end
if nu... |
538b7642a78df6a94ad51ed00b38ee6df7169e404ff0b00ff9ad752263f46eea | MATLAB | 802 | 31 | function sNew = structSelect(s, fieldSel)
fieldSel = string(fieldSel);
if length(s) > 1
sField = fields(s);
wrongIdx = find(~ismember(fieldSel, sField));
if ~isempty(wrongIdx)
error(strcat(strjoin(fieldSel(wrongIdx), ","), " is not a field in the old structure!"));
end
[~, selectId... |
f9092983e3113b940c0d9298cc2d22f8c51f92c98ddb8f04a094be2b52d4984b | MATLAB | 802 | 34 | function [transform] = pos2transform(pos, dim)
% POS2TRANSFORM reconstructs a transformation matrix from an ordered list
% of positions.
%
% Use as
% [transform] = pos2transform(pos, dim)
% where pos is an ordered list of positions that should specify a full 3D volume.
%
% The output transform is a 4x4 homogenous t... |
24a2ad54b44256c8e1f75fb77a391ed204c8d6b5f8e4164385a70aa3e9f0bc42 | MATLAB | 803 | 24 | function e = end(X,k,n)
%END Last index of indexing expression for tenmat.
%
% The expression X(end,:) will call END(X,1,2) to determine
% the value of the first index.
%
% See also TENMAT, TENMAT/SUBSREF, END.
%
%MATLAB Tensor Toolbox.
%Copyright 2015, Sandia Corporation.
% This is the MATLAB Tensor Toolbox by ... |
ab22e16875d2338fbd9ffb019831ddc2e5f8131b92e0feb272346f6b584153c5 | MATLAB | 803 | 23 | function [ f, J] = nakarushton( params, x )
%LOGISTICFUN evaluates modified logistic with params at x
% Detailed explanation goes here
%==========================================================================
%define inputs
x = x(:);
Rmax = params(1);
n = params(2);
kappa = params(3);
%===========... |
d9bdb419e502d01fc5af4d66927d3f561bc8ec1c79efcfdca3aa187625a70e4d | MATLAB | 803 | 21 | function [time_matrix] = Xtime_traintest(trainA,trainB,testA,testB,timewindow,labels_train,labels_test)
% cross decode between condtions train on 4 test on 1 bin. And across time.
% train on timepoint t and test on all other timepoints
% checked with simulation
% train
time_matrix = nan(1,length(timewindow)); %vecto... |
359d168c6326b3449f5dc223b84253f201c76fe8a420d06bb74abe8ad093b320 | MATLAB | 804 | 30 | %%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
% Peel off of the Motor unit spike train
% Input:
% X = whitened signal
% spikes = discharge times of the motor unit
% fsamp = sampling frequency
% win = window to identify the motor unit action potential with spike trigger averaging
... |
911dd57a6be243dc39f73e1aaa0e3e45963ea99fca02c9ddc6b6dd38b2216339 | MATLAB | 804 | 25 | function [h, p, c] = plotContour(fn, xyRange, varargin)
% Plot contours of the function
% evalatuated at xyRange = [xmin xmax ymin ymax].
%
% All other args (varargin) are passed directly to the contour function,
% except for 'npoints', which is by default 100 and 'ncontours'.
%%
% This file is from pmtk3.googlecode.c... |
bc3da89e01652dfbb5ff1f1662db0f92cb3bf4b09802c4c07268f9d6f826bc1e | MATLAB | 804 | 30 | function h_resetXYLimit3(handles)
[currentInd, handles, currentStruct, currentStructName] = h_getCurrendInd3(handles);
fig = findobj('Tag','h_imstack3Plot','Selected','on');
axesobj = findobj(fig,'type','Axes');
xlimStr = get(handles.xLimSetting,'String');
if strcmpi(xlimStr,'auto')
set(axesobj,'XLimMod... |
7762c7a142a68541c233240e7111237b316a1a99421ce771cd9fe9097af28caa | MATLAB | 805 | 33 | %
% _ _
% ___ _ __ __ _| |__ ___ ___ _ __| |_
% / __| '__/ _` | '_ \/ __|/ _ \| '__| __|
% | (__| | | (_| | |_) \__ \ (_) | | | |_
% \___|_| \__,_|_.__/|___/\___/|_| \__|
%
% plugin to load .SMR files into crabsort.
% uses the smrlib toolbox
% that can be found here:
... |
e727d1bffdb50a824132194c56fd9e57f2a20a52bd570230c212992c720ea53c | MATLAB | 805 | 34 | function save3DImage_uint16(vol,path)
if max(vol(:))>intmax('uint16')
fprintf('Warning: some values to be saved at %s are over uint16 maxval\n',path)
end
if min(vol(:))<0
fprintf('Warning: some values to be saved at %s less than 0\n',path)
end
if endsWith(path,'.tif')
%This is a wrapper function around... |
fb941d5263a5f0e12a20d20e9bd4d3cdecce8ea24cbfdf1f7616e8df81521ecc | MATLAB | 805 | 25 | %% Run t-test Enrichment
TCfc= fc(:,:,(group==1));
VPTfc = fc(:,:,(group==2));
fccombined={ TCfc VPTfc};
Bxname='group1 vs group2';
group1 = 'group1';
group2 = 'group2';
% Set parameters
params.np=1e4; % Number of permutations: set to 1 to get simple stats
%params.type='Pearson'; % flavor of correla... |
ff65c853e6f42f6568235b428fac7d093c8e2a8d08988a88e25617b50d1a8a47 | MATLAB | 805 | 40 | function [coeffs,err]=harmfit(vc,center,order);
% fits spherical harmonics to a set
% of surface points
vc=vc(:,1:3);
[nsurf,ndum]=size(vc);
vc=vc-repmat(center,nsurf,1);
rad=sqrt(vc(:,1).^2+vc(:,2).^2+vc(:,3).^2);
nblock=ceil(nsurf/100);
for i=1:nblock;
disp(i);
if i<nblock
vcloc=vc((i-1)*100+1:i*1... |
28518a1f4b92c0066e23677fc24701ef0d616cf76df896bddb8deee5a6eef3f9 | MATLAB | 806 | 25 | %% Linreg frequentist caterpillar demo
%PMTKneedsStatsToolbox regress
%%
% This file is from pmtk3.googlecode.com
requireStatsToolbox
X = loadData('caterpillar'); % from http://www.ceremade.dauphine.fr/~xian/BCS/caterpillar
y = log(X(:,11)); % log numner of nests
X = X(:,1:10);
[w, stderr, pval, R2, sigma2, confint,... |
3cd77f9e475efb242dccc6c50da4cb4ddcee58e2063a03e58d241aee2c5a5260 | MATLAB | 806 | 22 | function Z = plus(X,Y)
%PLUS Binary addition (+) for tensors.
%
% PLUS(A,B) is called for the syntax 'A + B' when A or B is a tensor. A
% and B must have the same size, unless one is a scalar. A scalar can be
% added to a tensor of any size.
%
% See also TENSOR.
%
%MATLAB Tensor Toolbox.
%Copyright 2015, Sand... |
3f1b269f511fb89f02c22a7399f266216b92aa0ab7b97da10d2de8dd234e54d6 | MATLAB | 806 | 33 | function S = h5att2struct(filename, location)
%H5ATT2STRUCT Reads a set of HDF5 attributes into a named structure.
% Usage:
% S = h5att2struct(filename, location)
%
% Returns:
% S: structure with fields corresponding to the attribute names, or empty
% if no attributes are found
if nargin < 2; location = '/'; ... |
b3977072e5edae03e8e6f18e85242afb5b1fd5a8d2b68c21a6178404ac41626c | MATLAB | 806 | 26 | function m = size(t,idx)
%SIZE Sparse tensor dimensions.
%
% D = SIZE(T) returns the size of the tensor.
%
% I = size(T,DIM) returns the sizes of the dimensions specified by DIM.
%
% See also SPTENSOR, SPTENSOR/NDIMS.
%
%MATLAB Tensor Toolbox.
%Copyright 2015, Sandia Corporation.
% This is the MATLAB Tensor ... |
38ce38758676acb433ac36dd1593918b67124b2967ba96d31490c2db503756b2 | MATLAB | 807 | 53 | function h = hline(y, varargin)
%HLINE Easy plotting of a horizonal line.
% Usage:
% hline
% hline(y)
% hline(ax, _)
% hline(_, ...) % plot args (e.g., linespec)
% h = hline(_)
%
% Args:
% y: y-value
%
% See also: vline
if nargin < 1; y = []; end
ax = [];
if isax(y)
ax = y;
y = [];
if nargin ... |
4bf47cc879ae79223a3257bda4c15d28534e923efdce42949085c873320822b0 | MATLAB | 807 | 44 | %% Agglomerative Clustering Demo
%PMTKneedsStatsToolbox dendrogram, cophenet, linkage
% Based on http://www.mathworks.com/access/helpdesk/help/toolbox/stats/index.html
%%
% This file is from pmtk3.googlecode.com
requireStatsToolbox
clear all
if 0 % Alpaydin data
X = [1 3;
1 4;
5 2;
5 1;
... |
571b1c0db69e853855093f5437c7ad9e7f2a375ea1b1c4d464313f6bc91cc15f | MATLAB | 807 | 27 | function [arena_center_x,arena_center_y,arena_radius] = arena_params(annname,moviename)
if exist(annname,'file'),
[arena_center_x,arena_center_y,arena_radius] = ...
read_ann(annname,'arena_center_x','arena_center_y','arena_radius');
else
arena_center_x = [];
end;
if isempty(arena_center_x)
if exist(annname,'... |
5f52d3bcb8082e4491e18124a5483774a14d5b6c721683c231b8354a0b11fe16 | MATLAB | 807 | 20 | function [ax,sh,fh,cmap] = plot_rfields(ax,space,rfield,simulation,spaceArgs,rfieldArgs)
if (nargin < 5) || isempty(spaceArgs)
spaceArgs = {};
end
if (nargin < 6) || isempty(rfieldArgs)
rfieldArgs = {'LineWidth',1,'HandleVisibility','off'};
end
[ax,sh] = func.plot_space(ax,space,spac... |
b3f4644c46d906789ee717457276829c1e6a2be99f122ce440c48b4b0493d750 | MATLAB | 807 | 41 | function [imgvec,maskvec] = iimg_clusters2indx(cl,volInfo)
% Take a clusters structure and turn it into an indexed image of dims
% volInfo.dim
%
% :Usage:
% ::
%
% [imgvec,maskvec] = iimg_clusters2indx(cl,volInfo)
% [imgvec,maskvec] = iimg_clusters2indx(cl,my_image_name)
%
% :Outputs:
%
% **imgvec:**
% ... |
cea9783574200ce53bd78aebc42734e3c562f852c0eae4a069939666d7751ae5 | MATLAB | 807 | 28 | function [startStopIndices] = j_event_detect(Y, onThr, offThr)
% [startStopIndices] = j_event_detect(Y, onThr, offThr)
Y = zscore(Y);
startIndices = jzeroCrossing(Y-onThr,1);
if(isempty(startIndices))
startStopIndices = NaN(0,2);
return;
end
stopIndices = jzeroCrossing(Y-offThr,... |
85a0e8b1ead080d1dd592ed6056736190948dac28af4680e43651941d0479327 | MATLAB | 808 | 17 | function currentSettings = h_getCurrentSettings3(handles)
% this function gets the red, green and blue limits and z limits from h_imstack2/2a
% as specified in handles.
currentSettings.zLim(1) = str2num(get(handles.zStackStrLow, 'string'));
currentSettings.zLim(2) = str2num(get(handles.zStackStrHigh, 'string'))... |
d382f9cb047b080d1268628d325fc103da5d312e53b0805d56b4b164dd0f877c | MATLAB | 808 | 34 | function [loglik, alpha] = hmmFilter(initDist, transmat, softev)
% Calculate p(S(t)=i| y(1:t))
% INPUT:
% initDist(i) = p(S(1) = i)
% transmat(i,j) = p(S(t) = j | S(t-1)=i)
% softev(i,t) = p(y(t)| S(t)=i)
%
% OUTPUT
% loglik = log p(y(1:T))
% alpha(i,t) = p(S(t)=i| y(1:t))
% This file is from pmtk3.googlecode.com
... |
d8e73d31e80af7cb6265da34c239bbd644500e9ea51d6ba58b4ba4bd3a7014f5 | MATLAB | 808 | 46 | % Important: all relevant parameters must be defined here.
% voxel size [microns]
dx_0 = 0.048100; % um
dy_0 = 0.048100; % um
dz = 0.125885; % um
% downsampling the images
scale = 0.5;
dx = dx_0 / scale;
dy = dy_0 / scale;
% slices = 81
% channels = 3 ?
% what is in third channel ?
% more volume has cell image, le... |
23e99e7c35e99048d2a22f4d83ef5f1b7a2133322eea72ecaab72319dbccee1a | MATLAB | 809 | 36 | function [gx] = g_Gaussian(Xt,P,ut,in)
% Gaussian convolution observation function
% function [gx] = g_Gaussian(Xt,P,ut,in)
% This function evaluates a gaussian-like observation function.
% IN:
% - Xt: [useless]
% - P: a 4X1 parameter vector
% - ut: [useless]
% - in: input structure. Contains the grid at which ... |
48e73b292ba928fe78e9d55fced5a7bbbeb41f886d3831f62c2bcc85f5ad0660 | MATLAB | 810 | 28 | function [lf] = leadfield_simbio(pos, vol)
% leadfield_simbio leadfields for a set of dipoles
%
% [lf] = leadfield_simbio(pos, vol);
%
% with input arguments
% pos a matrix of dipole positions
% there can be 'deep electrodes' too!
% vol contains a FE volume conductor (output of ft_prepare_vol_sen... |
8d3e7f6aeb8c5ba4cddff0a5f64ec053237ec137679d21be24989052182910a7 | MATLAB | 811 | 24 | function e = end(X,k,n)
%END Last index of indexing expression for sparse tensor.
%
% The expression X(end,:,:) will call END(X,1,3) to determine
% the value of the first index.
%
% See also SPTENSOR, SPTENSOR/SUBSREF, END.
%
%MATLAB Tensor Toolbox.
%Copyright 2015, Sandia Corporation.
% This is the MATLAB Tenso... |
5105b034efd7684bc29e53807c200e167245b6f19b3b467e34db59eaf42726bd | MATLAB | 812 | 25 | function conv = Check_conv(fcost,k_error,u_error,iter,optims)
% Check convergence
conv = 0;
formatSpec = 'Iteration:%d Cost:%e Error(u):%e Error(k):%e\n';
fprintf(formatSpec,iter,fcost(end),u_error(end),k_error(end));
if iter > 1
if k_error(iter) <= optims.k_conv
conv =... |
635fff413d1d3bace3e71902f80c143a902709a409ba5ea8e64ba771f9f01de1 | MATLAB | 812 | 28 | function c = getEllipseFromNewParams(gparams, nsigma, varargin)
%UNTITLED3 Summary of this function goes here
% Detailed explanation goes here
if nargin<3; detail=5e1;
else, detail = varargin{1}; end
mx = gparams(1); my = gparams(2);
sx = gparams(3); sy = gparams(4);
theta = gparams(5);
aa = (cos(theta)... |
75d859907e9a997c6ff111b25ee3ae00864e487a561c55726d119d08b37907d3 | MATLAB | 812 | 28 | function [dprime, crit] = dprime(stim, resp)
% if there was only one stimulus class shown, this whole thing doesn't make
% sense
if length(unique(stim(~isnan(stim)))) == 1,
dprime = NaN; crit = NaN;
return;
end
% use only 2 identities, however this is coded
stim(stim~=1) = -1;
resp(resp~=1) = -1;
% compu... |
8148095bbf18c37c6976d0eefbc01a8ef01da85f7093d2e976600f46b77d84d7 | MATLAB | 812 | 24 | % Copyright Christopher Fricke, University Leipzig Medical Center,
% Neurology 2024
srcf = 'data\prep\coreg_indiv\ct';
matlabbatch = {};
matlabbatch{1} = [];
matlabbatch{1}.spm.tools.MRI.CTnorm.images = {};
d = dir(fullfile(srcf,'P*.nii'));
for i = 1:length(d)
matlabbatch{1}.spm.tools.MRI.CTnorm.image... |
c05696949978d6b432fb267fe4a345422518f1397e0f7f4eaa93eaf080146239 | MATLAB | 812 | 37 | % _ _
% ___ _ __ __ _| |__ ___ ___ _ __| |_
% / __| '__/ _` | '_ \/ __|/ _ \| '__| __|
% | (__| | | (_| | |_) \__ \ (_) | | | |_
% \___|_| \__,_|_.__/|___/\___/|_| \__|
%
%
% updates the upper bound of the spike detector slider
function updateSpikePromSlider(self,src... |
f456c9f905283ec17e87889d63d75ed6a67c3c3915c2adbf66732979e2de67bf | MATLAB | 812 | 31 | % Calculates partial derivate along k dimension of tomogram T
% Author: Antonio Martínez Sánchez
% T -> tomogram (3D image)
% k -> 1: x-dimension, 2: y-dimension and otherwise: z-dimension
function [D] = diff3d( T, k )
[Nx Ny Nz] = size( T );
Idp = zeros( Nx, Ny, Nz );
Idn = zeros( Nx, Ny, Nz );
if k == 1
Idp(1:N... |
3bf267cfd03bfddadc269333f6dedc760df83594075c5118a12bee83942e8b19 | MATLAB | 813 | 39 | %% Peaks Demo
%PMTKneedsOptimToolbox fminunc
%%
%[X,Y,Z] = peaks; % 49x49 surface surface
% This file is from pmtk3.googlecode.com
requireOptimToolbox;
[X,Y] = meshgrid(linspace(-2.5,2.5,40),linspace(-3,3,50));
Z = peaks(X,Y);
figure;
%surf(X,Y,Z);
contour(X,Y,Z); colorbar
xlabel('x'); ylabel('y');
%view(-19,48)
ho... |
4d91a223b88c264aafc3ad12f8658a62182ef450d858fddcbc1afe0c2982f026 | MATLAB | 813 | 31 | function EWsig=Enrichment_Figs2(dataOut,IM,B)
% Plot network pairs meeting significance
if ~exist('B','var'),B=1;end
Pth=0.05./B;
PthMcN=0.05;
[NNidx,Tidx,TNidx]=IM2idx(IM);
Npairs=length(TNidx);
Nnets=max(IM.key(:,2));
NetKey=[[1:Nnets]',[1:Nnets]'];
cMap=[1,1,1;0,0,0];
%% Significant stats by network ... |
5424661ba65b6858bd4c43446c0e2dc7625cefa40fbdeda2150122dc1aa6e193 | MATLAB | 813 | 32 | function new_stack = stack_contrast_enhance(stack)
max3 = @(x) max(max(max(x)));
% Allocate new stack
new_stack = stack.*0;
high = []; % intensity increase
low = [];
% number of z-slices
Nz = length(stack(1,1,:));
% Computing the optimal contrast enhancement for all slices
for ... |
7ba4c5e55c36c501fe95fbc7fd22735c00f79040188cb79237449f4bbc11d4d8 | MATLAB | 813 | 23 | function C = mtimes(A,B)
%MTIMES Implement scalar multiplication for a ttensor.
%
% See also TTENSOR.
%
%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 Corpora... |
d61537fab4c4c8bae1711d7843f4a600d61b88d6ea8d2585aadbff6f64b05af5 | MATLAB | 813 | 27 | %http://www.mathworks.com/access/helpdesk/help/toolbox/bioinfo/index.html?/access/helpdesk/help/toolbox/bioinfo/ug/a1060813239b1.html
load yeastdata.mat
%%%%%%%%%%%%% filtering
emptySpots = strcmp('EMPTY',genes);
yeastvalues(emptySpots,:) = [];
genes(emptySpots) = [];
nanIndices = any(isnan(yeastvalues),2);
yeastval... |
0266c61d5ace325ea97b50e63ba3e1de042afc2c1c76308b62e8b5fb07054b07 | MATLAB | 814 | 31 | function Els = VBA_Elogsig (m, V)
% // VBA toolbox //////////////////////////////////////////////////////////
%
% Els = VBA_Elogsig (m, V)
% semi-analytical approx to E[log(sig(x))] when x~N(m,V)
% This function computes a semi-analytical approximation to the expected
% log-sigmoid mapping of x, when x is a gaussian v... |
1b5b4312006133a2be3785024877152464a53d824caa7ada334da90b4fa3c4aa | MATLAB | 814 | 33 | %COPYFIG Create a copy of a figure, without changing the figure
%
% Examples:
% fh_new = copyfig(fh_old)
%
% This function will create a copy of a figure, but not change the figure,
% as copyobj sometimes does, e.g. by changing legends.
%
% IN:
% fh_old - The handle of the figure to be copied. Default: gcf.
%
% OU... |
848a7ee1df5d3a6578e568361ec8714f5c7806b8075228d387ce5936fc65ad34 | MATLAB | 814 | 25 | function Draw_ROIs_Through_Cortex_3_Views(Anat,roi,Conn,params)
% This function displays hemispheres with ROI spheres and sticks connecting
% them in 3 views.
Px=0;
Py=-110;
Pz=-125;
Txt='+';
Ctxt=[1,0,0];
disp('<<< Drawing ROIs and sticks on transparent brains, please be patient')
figure('Color','w','... |
e164598ab26031c1d42e1d337af96f3888f2622d0e119497c6534d957f6dca60 | MATLAB | 814 | 33 | %%bin novel aligned activity
%Chad Heer
%INPUTS
%novel_activity = novel aligned activity
%bin_size - size of each bin
%ids = id of each roi
%OUTPUTS
%out = if each roi is above baseline or not
function [out] = bin_novel_activity(novel_activity, bin_size, ids)
%generate bins
number_bins = length(novel_activity)/bin... |
19166ecb608a6badd07058cccb13446761d5944b4c847b1eaaf075c583d35106 | MATLAB | 815 | 30 | % Calculates the sum in non-overlapping blocks of I of size dims.
%
% Similar to localsum except gets sum in non-overlapping windows.
% Equivalent to doing localsum, and then subsampling (except more
% efficient).
%
% USAGE
% I = localsum_block( I, dims )
%
% INPUTS
% I - matrix to compute sum over
% dims -... |
30cf6309009e307e0caf51f0ebcc493b98e7e60be8a899c806a6564114076e88 | MATLAB | 815 | 19 | % 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 2 of the License, or
% (at your option) any later version.
%
% This program is distributed in the hope that it will be useful,... |
6cfe1c0c0f2978130505325f39c86895e19279b37a114a6e575c1df9e829d832 | MATLAB | 815 | 51 | %% var5_test
%
% Create VAR coefficients for 5-node test network
%
% <matlab:open('var5_test.m') code>
%
%% Syntax
%
% A = var5_test
%
%% Arguments
%
% See also <mvgchelp.html#4 Common variable names and data structures>.
%
% _output_
%
% A VAR coefficients matrix for 5-node test network
%
%% Descript... |
709249f07eafaccf744201e890b62d99e07491c33a90bbee7b0715f5ba69cf0f | MATLAB | 815 | 31 | function [model] = mlpClassifFitSchmidt(X, y, nHidden, lambda, options)
% Multi-layer perceptron for BINARY regression; fit using minFunc
% nHidden can be a vector of integers if there are multiple laters
% We currenly assume the same L2 regularizer on all the parameters
% This file is from pmtk3.googlecode.com
if n... |
793823baca6468bb5285167e6a598c2a0b242e1534dbdcb623199b8438d28bf1 | MATLAB | 815 | 28 | function [intersect_bool, d, intersection,t,u,v] = ut_MTRayIntersect(point, dir, P, t)
vert1 = P(t(:, 1),:);
vert2 = P(t(:, 2),:);
vert3 = P(t(:, 3),:);
pp = repmat(point,size(vert1,1),1);
dd = repmat(dir, size(vert1,1),1);
e1 = vert2-vert1;
e2 = vert3-vert1;
e3 = pp-vert1;
P = cros... |
8107673a3e67fa86d884e9be7022da5f506a3d58f52da26afb8211e217c2b304 | MATLAB | 815 | 19 | % 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 2 of the License, or
% (at your option) any later version.
%
% This program is distributed in the hope that it will be useful,... |
989f5b877d0ba3ff4ebf1f79bef19726c77b5e33c00ee45b322510991690d474 | MATLAB | 815 | 26 | function S = tt_matrix2cellstr(M)
%TT_MATRIX2CELLSTR Convert a matrix to a cell array of strings.
%
%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. ... |
eb05b7aebe2e31b3ccafd47232a49490be318609284c82f2d7327e6da3e250a7 | MATLAB | 815 | 26 | function [reads1_common,reads2_common,strings_common] = calcCorrelationOfReads(reads1,strings1,reads2,strings2)
%calcCorrelationOfReads Calculate the correlation between two vectors of
%genes
%Get the list of all genes present
strings_common = union(strings1,strings2);
%Map reads1 into the common list of genes now
r... |
eb9c2dc15ff3220174434fee316eb66f9a655cc786641de867d0fe4695d644e4 | MATLAB | 815 | 25 | function this = save(this)
% Save an meeg object into a file
% FORMAT this = save(this)
%
% Converts an meeg object to struct and saves it.
%__________________________________________________________________________
% Copyright (C) 2008-2019 Wellcome Trust Centre for Neuroimaging
% Vladimir Litvak
% $Id: save.m 7619 2... |
7d4ec6b64dad172a78b74bb86d7957546286284d5db6df741ff9ba3fe671a682 | MATLAB | 816 | 26 | function T = calc_ttest_all_pairs(data_cell,varargin)
% performs T-test between all pairs of cells in data_cell
N = numel(data_cell);
T = repmat(ttest.ttest2Struct(),N,N);
for i = 1:N
for j = (i+1):N
T(i,j) = ttest.ttest2Struct(data_cell{i},data_cell{j},varargin{:});
end
end
... |
b4e6fe63d970b036a77e99c124eccb09f22fb0965b8e56da848a98e79fba3467 | MATLAB | 816 | 19 | function TSremovetrials(S,s,TT,trls,sup)
% removes trials from the specified trials from the specified trial type
% for the specified session of the specified subject.
%
% Syntax: TSremovetrials(Subject idx #,Session idx #,Trial type,trial #s,sup)
% sup is optional; if true, it suppresses the query
if nargin==4
su... |
d6345dfbf11ebff13b614702f33f532140c3cd63086929b460c949bb5e32c41a | MATLAB | 816 | 31 | function leadall=calc_leadcorr_major(x,ori,para_sensors,shell);
% calculates the corrections to the lead field coming from
% a set of centers, for given type (type=1: singular at infinity,
% type=3: singular at origin, type=2; both
[ndum,nsens]=size(para_sensors);
leadall=[];
for k=1:nsens
para_exp=para_sensors{... |
de7799a428f6d486725b2e2a4b11a1f62ffe61e08c40c1d4f688a911e282b298 | MATLAB | 816 | 15 | function result = summarizePerViewFiles(fileNameFromViewIndex, fileContentsFromViewIndex)
% Put all the per-view files (typically logs or error files) together into a
% single cellstring of lines. (With no trailing newlines.) Both
% fileNameFromViewIndex and fileContentsFromViewIndex should be a cell array
% of strin... |
e4575450247db34f332a3ec6e22b8901974fbd17e2de629a8969da34d3b3ee67 | MATLAB | 816 | 26 | function ufmf_write_struct(fid, s)
if ~(isstruct(s) && isscalar(s)) ,
error('Can''t write a non-scalar struct') ;
end
fwrite(fid, 'd', 'char') ;
field_names = fieldnames(s) ;
field_count = length(field_names) ;
fwrite(fid, uint16(field_count), 'uint8') ; % seems small, but this is what ufmf_read_head... |
fbfadfbae2538dec102f1b7798d036f3c00c951469af98e0b85eea8ac92d113b | MATLAB | 816 | 34 | % _ _
% ___ _ __ __ _| |__ ___ ___ _ __| |_
% / __| '__/ _` | '_ \/ __|/ _ \| '__| __|
% | (__| | | (_| | |_) \__ \ (_) | | | |_
% \___|_| \__,_|_.__/|___/\___/|_| \__|
%
% small helper method to fix some YTicks
function updateYTicks(self,channel)
d = dbstack;
if se... |
3dcaacba2bb8d312e3db142bbf82c1c331ba12dda8a4b1b88d017c8a5abbcf71 | MATLAB | 817 | 33 | function varargout = deconstruct(S)
% Deconstruct a structure from the output arguments only
% See also, structure().
%% Example
% mu = zeros(1, 10);
% Sigma = randpd(10);
% pi = normalize(ones(1, 10));
% model = structure(mu, Sigma, pi);
%
% [mu, Sigma, pi] = deconstruct(model); % cannot be called from the command lin... |
82ccc3dcc144fe7f14cc405817d08b72010752b0f0c1f1dd6e0a4760c5199927 | MATLAB | 817 | 33 | function A = affine(X,n,om,T,fc,cc,alpha_c)
if nargin < 7,
alpha_c = 0;
if nargin < 6,
cc = [0;0];
if nargin < 5,
fc = [1;1];
if nargin < 4,
T = zeros(3,1);
if nargin < 3,
om = zeros(3,1);
if nargin < 2,
n = [0;... |
90be6e27e94c660deac09eba4565cebac0ceb2ad7b77e0ea1235681a021b607f | MATLAB | 817 | 30 | function h = plotROC(falseAlarmRate, detectionRate, col, EER, tprAtThresh, fprAtThresh)
% Plot (convex hull of a) receiver operating curve
% This file is from pmtk3.googlecode.com
if nargin < 3, col = 'k'; end
k = convhull([colvec(falseAlarmRate); 1], [colvec(detectionRate); 0]);
%k = 1:numel(falseAlarmRate);
k = so... |
f57abbbba762d504462b4d564d730eda5bcd13a5bcc2e48f49fcb2ee9be01160 | MATLAB | 817 | 14 | function dxtick = heuristic_dxtick_from_xspan(raw_xspan)
% Want dxtick to be close to xspan/10 and to be a positive real, and to be a
% power of ten, or be two times a power of ten, or be five times a power of ten.
% This guarantees the number of ticks per span will in the interval (6,18).
assert(isnumeric(raw_... |
07338a23ee26bce1a21714c7809d103deaeb4b7652bf8c759d65652c7fe179a4 | MATLAB | 818 | 28 | function nrm = norm(X)
%NORM Norm of a ttensor.
%
% See also TTENSOR.
%
%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 the terms of Contrac... |
10feef6286d15ad365e362a59ddda451c7c754fe2179b8854c155d73f590afbf | MATLAB | 818 | 26 | function [] = make_sift_binaries(img, map, image_size, sift_params, N)
assert(all(size(map) == size(img)));
f = fopen('test_map.bin', 'w');
fwrite(f, image_size(1), 'uint32');
fwrite(f, image_size(2), 'uint32');
fwrite(f, image_size(3), 'uint32');
fwrite(f, int8(map), 'int8');
fclose(f);
... |
88006a4bc7c3a263a1ff00643908a27de16a88aa96ff9bcaa0be6f8e940a5845 | MATLAB | 818 | 28 | function statsToolboxDependencies(rootDir)
% Generate an html table showing all of the stats toolbox functions used
% by files in rootDir, (and subdirectories), along with the files that use
% them.
% This file is from pmtk3.googlecode.com
cd(rootDir);
R = deptoolbox('stats');
S = unique(vertcat(R.dependsOn{:}));
F ... |
ec728cd0d0bb92ea3c104c3fb69e9ec56b41a005417e02f03bf83fc8495235a6 | MATLAB | 818 | 38 | function writeText(text, fname, append)
% Write text to a file.
%
% WARNING: Any existing text inside fname will be lost unless in append
% mode.
%
% INPUTS:
%
% text - an N-by-1 cell array of strings written out as N separate lines.
% fname - the name of the output file.
% append - (default=false) if true, the text i... |
b5e54f528dcaa242e405107b37a51bfca3c09ceba07397a64112abcbe5c444b3 | MATLAB | 819 | 32 | classdef TrainingOverlayReceiver < handle
properties
axs
tstrBases
tblMFT
end
methods
function obj = TrainingOverlayReceiver(hAx,tbases,tMFT)
assert(numel(hAx)==numel(tbases));
obj.axs = hAx; % can be nonscalar
obj.tstrBases = tbases;
obj.tblMFT = tMFT;
end
... |
ccdcab1706c22eafe6a0315a62c2a10eba2f7fd9db55ce3062b3c44d4ceb1f83 | MATLAB | 819 | 37 | %% MLP Regression Demo
% Based on Mark Schmidt's Demo from
% http://people.cs.ubc.ca/~schmidtm/Software/minFunc/minFunc.html#8
%%
% This file is from pmtk3.googlecode.com
setSeed(0);
nVars = 1;
nInstances = 400;
options.Display = 'iter';
options.MaxIter = 50;
[X,y] = makeData('regressionNonlinear',nInstances,nVars);
... |
f507108a82c2157986cf37ea973855517840297af73ab430cdc1ad41c03cedb6 | MATLAB | 819 | 22 | function Z = minus(X,Y)
%MINUS Binary subtraction (-) for tensors.
%
% MINUS(A,B) is called for the syntax 'A - B' when A or B is a tensor. A
% and B must have the same size, unless one is a scalar. A scalar can be
% subtracted from a tensor of any size.
%
% See also TENSOR.
%
%MATLAB Tensor Toolbox.
%Copyrigh... |
0fbb619e8c900db1274905b1f78fd58c49916055a3b3c5bda475f9824e8c9ba8 | MATLAB | 820 | 37 | function [xi_summed, xi] = hmmComputeTwoSlice(alpha, beta, transmat, softev)
% Calculate p(Q(t)=i, Q(t+1)=j | y(1:T)) , t=2:T
% INPUT:
% alpha(i,t) computed using forwards
% beta(i,t) computed using backwards
% transmat(i,j) = Pr(Q(t) = j | Q(t-1)=i)
% softev(i,t) = Pr(Y(t)| Q(t)=i)
%
% OUTPUT:
% xi(i,j,t) = p(Q(t)=i,... |
10ff7f0454e1dfbe6f33490c58e88df768a608da410660c52f0a13532d2559a4 | MATLAB | 820 | 51 | %
% filtro segun script EEGLAB
%
%
function LAN = filt_eeglab(LAN,low,hi)
if isstruct(LAN)
LAN = filt_eeglab_struct(LAN,low,hi);
elseif iscell(LAN)
for lan = 1:length(LAN)
LAN{lan} =filt_eeglab_struct(LAN{lan},low,hi);
end
end
end
function LAN = filt_eeglab_struct(LAN,low,hi)
if iscell(LAN.da... |
e0b772ee93cc7cd912ba1d9f6b92c208c95aeb14fa6ff767bb9fc358da240d6b | MATLAB | 821 | 33 | function [flag] = VBA_isBinary (X)
% // VBA toolbox //////////////////////////////////////////////////////////
%
% [flag] = VBA_isBinary (X)
% check if X only contains 0 or 1 values
%
% IN:
% - X: matrix, cell array of matrices, or structure to be checked
% OUT:
% - flag: - true if all elements of X are binary (0 o... |
f0f67ab4d7b5f6d3b3841c1256016bf72eb988ef3e77b07a2b1d2af7ee29d706 | MATLAB | 821 | 24 | function [Sig,Lam] = covcond(c,a)
% Generate a covariance matrix and its inverse with a given cond number
% C and first direction A.
%COVCOND covariance matrix with given condition number
% [Sig,Lam] = covcond(C,A) generates covariance matrix and its
% inverse with given cond number C and first direction A.
% This fil... |
76da00f17132b16edc3014e56e5ef04ec18696d004a214cb16c36bfa15f73d4d | MATLAB | 822 | 32 | function [R,M,k] = circumcenter(A,B,C)
% Center and radius of the circumscribed circle for the triangle ABC
% A,B,C 3D coordinate vectors for the triangle corners
% R Radius
% M 3D coordinate vector for the center
% k Vector of length 1/R in the direction from A towards M
% (Curvature ... |
9581b28df831831e96b1544088259ee5b1a44ae7a6b0df92176537afb70125e8 | MATLAB | 822 | 46 | %normalized gaussian kernel
a=single([.0003 .1065 .7866 .1065 .0003]);
n=length(a);
%make a 3D kernel
H3 = fspecial3('gaussian');
a2 = H3(3, :, 3);
H4 = fspecial('gaussian',5);
[s,v,d] = svd(H4);
a3 = abs(s(:,1));
b=a;
b2 = a2;
b3 = a3;
for d=2:3
b=kron(b,a');
b2=kron(b2,a2');
b3=kron(b3,a3');
end
H=sin... |
a002bbbb98a4cea487a7dbb96ae6d186d1fc4e1768cd1249ce858f866cea2d38 | MATLAB | 822 | 36 | function [Rhat, m, s] = epsr(samples)
% EPSR "estimated potential scale reduction" statistic due to Gelman and Rubin.
%
% Inputs
% samples(i,j) for sample i, chain j
%
% Outputs
% Rhat = measure of scale reduction - value below 1.1 means converged:
% m = mean(samples)
% s = std(samples)
% This file is from pmtk3.googl... |
acf3c88392354c76e422b7829a7a245401fc7683a6e272b68a3dcc8dba65fd9a | MATLAB | 822 | 39 | function logp = invWishartLogprob(arg1, arg2, arg3)
% logp(i) = log p(S(:, :, i) | model)
% If model.Sigma is scalar, than logp(i) = log p(S(i) | model)
%
% model has fields Sigma and dof
% model.dof must be > d-1
%
% logp = invWishartLogprob(model, S); OR
% logp = invWishartLogprob(Sigma, dof, S);
%%
% This file is f... |
8526e3c5550190af1794472b2bf772c7889f0eb5a75a7ff28440eb574bb1410b | MATLAB | 823 | 30 | function X = gibbsSample(fullCondSampler, xinit, Nsamples, Nburnin, thin)
%% Generic gibbs sampler
% fullCondSampler{i}(xh) returns a single sample for ith hidden variable,
% from the full conditional, (i.e. the distribution conditioned on all
% variables except the ith hidden), and with xh used as the values for the
%... |
d657b54fc47e097d5a9a7ca6c8bab3191eb87e88696e7c31739735158c2ff0dd | MATLAB | 823 | 22 | function e = end(X,k,n)
%END Last index of indexing expression for ttensor.
%
% The expression X(end,:,:) will call END(X,1,3) to determine
% the value of the first index.
%
% See also TTENSOR, TTENSOR/SUBSREF, END.
%
%MATLAB Tensor Toolbox.
%Copyright 2015, Sandia Corporation.
% This is the MATLAB Tensor Toolbo... |
41403da411bcd614d100c088ef09f9200915fcc65d46a62b59e0dc7413c8dbb0 | MATLAB | 824 | 21 | function args = set_arg_in_cellarray(cell_with_args,varargin)
n = numel(varargin);
assert(mod(n,2)==0 ,'set_arg_in_cellarray :: varargin must have pairs of arguments and values');
assert(iscell(cell_with_args),'set_arg_in_cellarray :: cell_with_args must be a cell with pairs of arguments and value... |
9405bf0401b3bce5a469bd9cb2f97cbe72dd04d81695a6e7fc3af5168ddf62aa | MATLAB | 824 | 27 | function normals = compute_normals( mesh )
% Modified by William Warriner 22 Aug 2019
% from COMPUTE_mesh_normals by Adam H. Aitkenhead
% Inputs:
% - @mesh is either an FV-struct, or a real, finite, 3D double array with
% dimensions (:,3,3) representing face-vertex data with only triangular
% faces. The first dimens... |
c1428339858fb14d6ff2c09bfa56e39ed6936f9e514c2845d884fed82412bf06 | MATLAB | 824 | 36 | function df = numericalGradient(f, x, args)
% We assume f is a function of the form v=f(X,args)
% where v(i)=f(X(:,i), args) computed in parallel
% args is a cell array; use {} if no args required
% This file is from pmtk3.googlecode.com
n = length(x);
df = zeros(n,1);
method = 'complex';
%method = 'centralDiffere... |
0d50ad9b7ad43aaad133a5da801d3792ddcda91fcc80edb6ea386a4ace2bbb02 | MATLAB | 827 | 43 | function [gx,dgdx,dgdp] = g_demo_susceptibility(Xt,P,ut,in)
%- initializations
idX1 = 1:in.n5(end);
nreg=length(in.n5);
nresp=length(in.r);
gxr=zeros(nresp,1);
dgdxr=zeros(length(Xt),nresp);
dgdpr=zeros(length(P),nresp);
%== compute gradients
[gxn,dgdxn,dgdpn] = g_HRF3(Xt(idX1),P,ut,in) ;
if nresp>0
[gxr,dgdxr(in.... |
42e0523208017eb019177c06c65d3831fd080f8887c6ffed46c53f8b3b96588d | MATLAB | 827 | 19 | function max_pool_size = concurrency_size_in_downsample_all(cond)
loadParameters;
if ~isfield(params,'DOWN_SAMPLING_MAX_POOL_SIZE')
main_mem_usage = params.MATLAB_PROC_CONTEXT;
par_worker_mem_usage = 2 * cond.imgsize_dbl + cond.downsample_imgsize_dbl + params.MATLAB_PROC_CONTEXT;
max_p... |
54bea7b17473a0a0c719c788fe80556e9f524ed042038a50c704959bec1a3094 | MATLAB | 827 | 22 | function [Fc, Fs, Jc, Js] = calcSubunitSurrActivationAmplitude(params, spf)
%UNTITLED6 Summary of this function goes here
% Detailed explanation goes here
%==========================================================================
spff = spf(:); %standardize input
sigma = params.subsigma;
kscale = params.subsurrsc;
... |
55b011e47086698ed9258447d65657fa5bdf7e652ada14b0d1808a110ac39861 | MATLAB | 827 | 51 | % dprime_test.m
nsignaltrials = 18;
nnoisetrials = 12;
faweight = .3;
h = 0:nsignaltrials;
fa = 0:nnoisetrials;
hh = repmat(h',1,length(fa));
ff = repmat(fa,length(h),1);
ns = ones(length(h),1)*nsignaltrials;
nn = ones(length(h),1)*nnoisetrials;
for i = 1:length(fa)
[dd(:,i), cc(:,i)] = rd_dprimeWeighted(hh(:,... |
a99eed80db801ab3296716f78c99e8a7065f46dab64983a653114a6c2772a8b6 | MATLAB | 827 | 43 | function varargout = permission(varargin)
% Format
% For getting the value
% dat = permission(obj)
%
% For setting the value
% obj = permission(obj,dat)
% _______________________________________________________________________
% Copyright (C) 2008 Wellcome Trust Centre for Neuroimaging
%
% $Id$
if nargin==2,
va... |
b17258249b75654d6db8791389b9b0245d2deb862df5b50be8aceb5f766b205b | MATLAB | 827 | 50 | function s2d=sensor3d2sensor2d(sensors,lr,ud);
[ns,ndum]=size(sensors);
[center,radius]=sphfit(sensors);
s=sensors-repmat(center,ns,1);
cms=mean(sensors);
zz=cms-center;
zz=zz/norm(zz);
snorms=sqrt(sum((s').^2)');
s=s./repmat(snorms,1,3);
thetas=acos( s*zz');
ex=[1;0;0];ey=[0;1;... |
0365770646054b6f72240b66a11fa01461c7382db988e806fcc5684a9120afca | MATLAB | 828 | 35 | function [X, mu, sigma2] = polyBasis(x, d, mu, sigma2)
%% Polynomial basis expansion of degree d
% function [X] = polyBasis(x, d)
% x(i) -> [1 x(i) x(i)^2 ... x(i)^d] stored in rows of X
% We put highest powers first, to be consistent with Matlab's convention (see polyfit)
%
% function [X, mu, sigma2] = polyBasis(x, d)... |
079feb6ae61ea01ee65b16a283e435977f3152b3cf37e3555f3bc17c8bef660c | MATLAB | 828 | 38 | function [C,nbits] = clfEcocCode( k )
% Generates optimal ECOC codes when 3<=nclasses<=7.
%
% USAGE
% [C,nbits] = clfEcocCode( k )
%
% INPUTS
% k - number of classes
%
% OUTPUTS
% C - code
% nbits - number of bits
%
% EXAMPLE
%
% See also CLFECOC
%
% Piotr's Image&Video Toolbox Version 2.0
% Copyrig... |
64917088249468c6d755df77ec02e2772fe72709ed37c7bf1b0ed626d3a497cd | MATLAB | 828 | 33 | % Continuous movement correction based on cross-correlation barycenter
% in a selected window
function ImgCor=CorMovWin2(Img,Win)
%Display mean image
h=figure;
imagesc(mean(Img(:,:,Win),3)) %Coming soon: automatic box
Box=ginput(2);
close(h)
%Define data in box
WinX=floor(min(Box(:,2))):floor(max(Box(:,2)));
WinY=flo... |
b98b8d7ff2889a0684a40c80fcb4e520fe10556814f4897c07b81bdb5bc56a89 | MATLAB | 828 | 31 | dataPath = getenv('GADIR');
matName = 'robustness_amplitude_singleTrial.mat';
stimType1 = {'median', 'tibial'};
srmr_nr = str2num(dataPath(19));
if srmr_nr == 1
stimType2 = {'mixed'};
elseif srmr_nr == 2
stimType2 = {'d1', 'd2', 'd12'};
end
aType = {'CCA', 'target'};
removeNaNs = ... |
c0ab5ec26ab44a8156fd18d115dd1970ce43fd07c409439d65d4d2dcf91e0b60 | MATLAB | 828 | 39 | function [wn, Sn] = normalEqnsBayes(X, y, Lam0, w0, sigma)
% Numerically stable solution to posterior mean and covariance
% under Gaussian prior N(w | w0, Lam0^{-1}), where sigma is noise std
% wn is the ridge (MAP) estimate, Sn is its covariance
% This file is from pmtk3.googlecode.com
if all(Lam0==0)
[Q,R] = q... |
f8413881da7734c3c614e9d72df697d07f72cf37648f325d270cf9a2194a755d | MATLAB | 828 | 14 | function test_roian_aws_training()
linux_project_file_path = '/groups/branson/bransonlab/apt/unittest/four-points-testing-2025-04-11-with-rois-added-and-fewer-smaller-avi-movies.lbl' ;
[project_file_path, replace_path] = localize_test_project_path(linux_project_file_path) ;
tester = LabelerProjectTester(projec... |
083609b776a6cd4386044a9642940cc92e93d1db44700f8244ac5fe623bc1f7b | MATLAB | 829 | 24 | function [mri] = align_fsaverage2mni(mri)
% ALIGN_FSAVERAGE2MNI performs an affine alignment of the anatomical volume from
% FSAVERAGE towards MNI coordinates. Only the homogeneous transformation matrix is
% modified and the coordsys-field is updated.
%
% Use as
% mri = align_fsaverage2mni(mri)
% where the first inp... |
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