sha256 stringlengths 64 64 | language stringclasses 28
values | size int32 1 491k | lines int32 1 23.2k | content stringlengths 1 200k |
|---|---|---|---|---|
58b66ca827db81062c3f2fff219dcaf33ec7e769507385a69a6302cb7dc18584 | MATLAB | 2,468 | 57 | %% Transfer Entropy Demo 2
% This demo goes through calculating the transfer entropy between two
% discrete time series. In particular, this example works with neural spike
% trains.
% Data Type: Discrete (Neuron Action Potentials)
% Number of Variables: 2
% Information Analysis: Transfer Entropy
% Trial Based or Sing... |
a58ad4e8539af4a91b7e9bf0e87658d1a9a9576a720b324ba996b4777193a916 | MATLAB | 2,468 | 98 | function importCellMaskMLMD(MLMD)
%importCellMaskMLMD imports cell masks for a list of movies
%
%SYNOPSIS importCellMaskMLMD(MLMD)
%
%INPUT MLMD: MovieList or MovieData object for movie(s) to be analyzed
%
%OUPUT Output is saved in directory ImportedCellMask belonging to each
% analyzed movie.
%
%Khuloud Jaqaman, ... |
104a5a1e28378728e295df4b1d63772ef26c3275f8a80985159a45f617db7d07 | MATLAB | 2,469 | 72 | function [t,wr,w] = trydif(t,wrIN,wIN, x,z, pars,K)
% [t,wr,w] = trydif(t,wrIN,wIN, x,z, pars,K)
%
% TRYDIF Tries feasibility of differentiated step length w.r.t.
% wide region and its neighborhood.
%
% ********** INTERNAL FUNCTION OF SEDUMI **********
%
% See also sedumi, stepdif
% This file is part of SeDuMi 1.1 ... |
32054e0f2a2cea8eb0f85a049645bf8eb68073a677c2051144b4a7e84b0a4dae | MATLAB | 2,469 | 65 | function hline = plot_NSC_frac(sol, fluct, proc, k, scenarioLabel, color)
% Plot NSC counts and aNSC fractions with prediction bands
%
% INPUTS:
% sol - ODE solution struct (from ode23s)
% fluct - struct with fields: t, sum, sum_upper, sum_lower, frac, frac_upper, frac_lower
% proc ... |
ee77ee99a14db3209ddd840c6b038a2dd53928bc106786ba4dfdf432fa0f2782 | MATLAB | 2,469 | 101 | function A = catstruct(varargin)
% CATSTRUCT - concatenate structures
%
% X = CATSTRUCT(S1,S2,S3,...) concates the structures S1, S2, ... into one
% structure X.
%
% Example:
% A.name = 'Me' ;
% B.income = 99999 ;
% X = catstruct(A,B)
% % -> X.name = 'Me' ;
% % X.income = 99999 ;
%
% ... |
1c09d500cc50c66e541871cfc3f5647bd0e16544d0acc1f1544dceffcfcb6f31 | MATLAB | 2,470 | 79 | % qmeshcut demonstration
%
% by Qianqian Fang, <fangq at nmr.mgh.harvard.edu>
%
% to demonstrate how to use qmeshcut to produce cross-sectional plot
% of an un-structured (tetrahedral) mesh
% run vol2mesh demo 1 to create a 3d mesh
demo_vol2mesh_ex1
% define a plane by 3 points, in this case, z=mean(node(:,3))
z0=... |
9c2b1d158fc88854e1223fb4c28de8222a374c4b01d39ef77f33a93c77c5e757 | MATLAB | 2,470 | 53 | function [lh_labels,rh_labels]=CBIG_ArealMSHBM_BuildTwoVertThickBoundary(lh_avg_mesh, ...
rh_avg_mesh, lh_orig_labels,rh_orig_labels)
% [lh_labels,rh_labels]=CBIG_ArealMSHBM_BuildTwoVertThickBoundary(lh_avg_mesh, ...
% rh_avg_mesh, lh_orig_labels,rh_orig_labels)
%
% This script will create boundaries for a given p... |
12de378939a1a56fb7e4a8553b342ba57ea1b6e7750fb9fa83a0457035b0b46c | MATLAB | 2,471 | 62 | % SOFA API demo script
% load HRTF in BT-DEI format and save in SOFA format.
% Copyright (C) 2012-2013 Acoustics Research Institute - Austrian Academy of Sciences;
% Licensed under the EUPL, Version 1.1 or – as soon they will be approved by the European Commission - subsequent versions of the EUPL (the "License")
... |
07b6a315d85e42c10e31faaa3ab0d854d7f55b44b2bd3f3c6e74b065b61fa820 | MATLAB | 2,472 | 53 | function handles = dan_plot_detections(handles, detections, markColor)
%%
% Authors: Dan Denis
% Date: 2021-07-14
%%
for chan_i = 1:length(detections)
% Look for each detected event in the current epoch
specIdx{chan_i,:} = find(detections(chan_i).startSample >= handles.plotParam.epochSample(handles.p... |
8e2f94b6cc886cb0ccfb3fb17b48cf39eae5ae207e2d8d57e012a15c50f2957a | MATLAB | 2,472 | 85 | function cell2csv(fileName, cellArray, separator, excelYear, decimal)
% Writes cell array content into a *.csv file.
%
% CELL2CSV(fileName, cellArray, separator, excelYear, decimal)
%
% fileName = Name of the file to save. [ i.e. 'text.csv' ]
% cellArray = Name of the Cell Array where the data is in
% se... |
717e9ceec2a49b5543b85643bd0bba5a5b2b7595223c875453eb86fd0820fd0f | MATLAB | 2,475 | 83 | function y = psdinvscale(ud,x,K)
% y = psdinvscale(ud,x,K ,transp)
%
% PSDINVSCALE Computes length lenud (=sum(K.s.^2)) vector y.
% Computes y = D(d^{-1}) x with d in K.
% Y = Ud' \ X / Ud
% ********** INTERNAL FUNCTION OF SEDUMI **********
%
% See also scaleK, factorK.
% This file is part of SeDuMi 1.3 by Imr... |
213bba9c1b44f8a44af72f797c678453e05a07d6587763ab93a0c18416108f6a | MATLAB | 2,476 | 58 | function ClincFreq_Norm2MNI_T2(indat,inroi,outdir,outname,voxelsize,pth)
try
[patdat,namdat,extdat] = fileparts(indat);
% [patroi,namroi,extroi] = fileparts(inroi);
[v1 d1] = Dynamic_read_dir_NIFTI(indat);
[v2 d2] = Dynamic_read_dir_NIFTI(inroi{1});
d1(isnan(d1)) = 0;
d1(isinf(d1)) = 0;
D1 = zeros(v1.dim);
D1(d1>0) = 1... |
bfa879a8b0755a0bba6e3fcb31d6c76162c05dc2c8166d1cb54fbf5b075ce62c | MATLAB | 2,476 | 59 | % SOFA API - demo script
% Copyright (C) 2012-2014 Acoustics Research Institute - Austrian Academy of Sciences
% Licensed under the EUPL, Version 1.1 or – as soon they will be approved by the European Commission - subsequent versions of the EUPL (the "License")
% You may not use this work except in compliance with t... |
479007c5221af8e898a002fdab2c40c5e84e39f5eaf0194f457b72a885d4bbaa | MATLAB | 2,477 | 79 | function data = AFOFdata_struct_CL(inputdata, filenames)
% USE THIS FOR EXP7 (CEM) (now Exp8)
% how it works:
% fly = AFOFdata_struct_CL(data,filenames) where data and filenames are
% outputs from AF_OF_importer()
for e = 1:length(inputdata)
for t = 1:size(inputdata{e}{1},1)
trial.filename = filena... |
90196b99ce8bb8190b9119a28535c47d907c3c8442abe23f99995926df8be8da | MATLAB | 2,478 | 99 | function gmsh_mesh2d_write ( gmsh_filename, m, node_num, node_x, ...
element_order, element_num, element_node )
%*****************************************************************************80
%
%% GMSH_MESH2D_WRITE writes 2D mesh data as a Gmsh mesh file.
%
% Licensing:
%
% This code is distributed under the GN... |
ccedfb713baf5f320e1a44679b099efb8c32a62602a71968496a1adb083eb8d9 | MATLAB | 2,478 | 58 | function ClincFreq_Norm2MNI_EPI(indat,inroi,outdir,outname,voxelsize,pth)
try
[patdat,namdat,extdat] = fileparts(indat);
% [patroi,namroi,extroi] = fileparts(inroi);
[v1 d1] = Dynamic_read_dir_NIFTI(indat);
[v2 d2] = Dynamic_read_dir_NIFTI(inroi{1});
d1(isnan(d1)) = 0;
d1(isinf(d1)) = 0;
D1 = zeros(v1.dim);
D1(d1>0) = ... |
6847ddb70002f3cb7149984f55e32fa3a3082946d5630f1c719a32f96cb3191a | MATLAB | 2,479 | 70 | function [H] = traditional(f);
% TRADITIONAL creates the homogenous spatial transformation matrix
% for a 9 parameter traditional "Talairach-model" transformation
%
% Use as
% [H] = traditional(f)
%
% The transformation vector f should contain the
% x-shift
% y-shift
% z-shift
% followed by the
% pitch (rot... |
a7350622c2b2f8b2fab50424f80f212ed86cd6c221dd6b61f73ac492d426b167 | MATLAB | 2,479 | 73 | function d=edit_distance_damerau(s,t)
% Calculate the Damerau-Levenshtein string distance.
%
% @author B. Schauerte <schauerte@ieee.org>
% @date 2010
% Copyright 2010 B. Schauerte. All rights reserved.
%
% Redistribution and use in source and binary forms, with or without
% modification, are permit... |
cca2ddb7a437d1cecc3fc1345986ac7efbef4125fb9ede1a1b76aac7027930bf | MATLAB | 2,479 | 63 | function [AllX,space]=ea_explorer_calcvoxelvals(vatlist,obj)
templateresolution = obj.resolution;
if size(vatlist,2)>1
sidesuffices={'_r','_l'};
else
sidesuffices={''};
end
disp('Need to export Efields in proper format, this may take a while');
outdir=[fileparts(obj.leadgroup),filesep,'sweetspots',filesep,obj.I... |
db17d6056a1254f8d63ccc031aab3d468490ecbe407912b55bcd6feeada8325c | MATLAB | 2,479 | 87 | % Figure 6.15: A comparison of stochastic and worst-case robust approximation
% Section 6.4.2
% Boyd & Vandenberghe "Convex Optimization"
% Original by Lieven Vandenberghe
% Adapted for CVX by Joelle Skaf - 10/03/05
%
% Consider the least-squares problem:
% minimize ||(A + tB)x - b||_2
% where t is an uncertain p... |
845f44f72272b7da112290a52d1b5aa5e2abfd19692d92e56edf5f2467b6c087 | MATLAB | 2,480 | 73 | function y = geo_mean( x, dim, w )
%GEO_MEAN Geometric mean.
% Y=GEO_MEAN(X), where X is a vector, computes the geometrix mean of X. If any
% of the elements of X are negative, then Y=-Inf. Otherwise, it is equivalent
% to Y=PROD(X).^(1/LENGTH(X)). All elements must be real.
%
% For matrices, GEO_MEAN(X) is ... |
f1b148e663d2c3d65a834df9222968d4a40d6249dbd0b4b45c2a57a0ba37a46b | MATLAB | 2,482 | 84 | %%********************************************************************
%% minEpts: minimum volume ellipsoid containing given
%% points, V(:,1),...,V(:,m).
%%
%% max log(det(B))
%% s.t. || Bx + d || <= 1, for all x = V(:,1),...,V(:,m)
%%
%% [blk,At,C,b,OPTIONS,B,d] = minEpts(V,solve)
%%
%% For problem formul... |
88f82102bf11c978c4167d5a31457cbba62c079234fa07ed023df5719bd8175d | MATLAB | 2,483 | 66 | function [diffs] = getbumpdifferences(trtyps,data,tys,vols)
% This code is set up so that you can take pre-stimulus timepoints as well
% if you want, but you need to edit the output (and maybe check that the
% timepoints work)
% data is output of normforbump
% tys is second output from concat_dFF (matching dat... |
b8123acf082606f087f22b3650c2119308d8aa0daa90002c4dd89e73f2e1e60c | MATLAB | 2,483 | 75 | function [ ] = run_diet_crossvalidation( )
% This file is a part of the MDSINE program.
%
% MDSINE: Microbial Dynamical Systems INference Engine
% Infers dynamical systems models from microbiome time-series datasets, and
% predicts biologically relevant behaviors of the ecosystems.
% Copyright (C) 2015 Vanni Bucci, Geo... |
35cc09b90ce0b8d4f0cfdc8a8871225a3e80ab2b1fba99852bba3ca86f12da17 | MATLAB | 2,485 | 54 | function CBIG_hMRF_example_wrapper(output_dir)
% CBIG_hMRF_example_wrapper(output_dir)
%
% This is the wrapper function to set up and run the clustering algorithm based on the input arguments.
%
% Input
% - output_dir: (string)
% ABSOLUTE path to the directory to which the output results will be saved.
%
% Exam... |
a1f7388c28af80668bc51aea14ad3313df67f682c9e8ebbcf3c163dab823f481 | MATLAB | 2,486 | 59 | function [outdata, outsform1, outroi] = cifti_struct_dense_extract_volume_all_data(cifti, cropped, dimension)
%function [outdata, outsform1, outroi] = cifti_struct_dense_extract_volume_all_data(cifti, cropped, dimension)
% Extract the data for all cifti volume structures, expanding it to volume frames.
% ... |
b0cd99c7a611095822508e9513dd2ceb6b103dc6485f2f1ebfd16fdc0f444426 | MATLAB | 2,486 | 74 | function data = AFOFdata_struct5(inputdata, filenames)
% USE THIS FOR EXP5 DIV STIMS (CEM)
% how it works:
% fly = AFOFdata_struct5(data,filenames) where data and filenames are
% outputs from rotoball_importer()
for e = 1:length(inputdata)
for t = 1:length(inputdata{e}{1})
trial.filename = filename... |
1678588ecb1642dce6be59a42dc8ef5113f5ad8c369595e629d43ec5c1a88e7c | MATLAB | 2,487 | 86 | % Visualisation and diagnostics for meta-d' fit object generated by
% fit_meta_d_mcmc
%% Observed and expected type 2 ROCs for S1 and S2 responses
h1 = figure(1);
set(gcf, 'Units', 'normalized');
set(gcf, 'Position', [0.2 0.2 0.5 0.5]);
subplot(2,2,1);
plot(fit.obs_FAR2_rS1, fit.obs_HR2_rS1, 'ko-','linewidth',1.5,'ma... |
d9a95876c8e415a5ec6195dd116eae0c357e9338b7b14d766844133eb6ba56f9 | MATLAB | 2,487 | 62 | function [concat, concattypes, flybyfly] = concat_dFF(flies, trtyps, fr, baseper)
% aka Step 1 from columnsbytrial
% This will calculate the baseline as mean of lowest x percent values per
% column across concatenated trials (in one experiment).
% Then it calculates the dF/F.
% To run this, you need to navigate ... |
310b6e7fecc318cddb54e91d547239ff4319271a5441dacb9361d1e6a268fadc | MATLAB | 2,488 | 166 | % This video was uploaded and converted to .gif with Giphy:
% https://giphy.com/create/gifmaker
%
% https://media.giphy.com/media/cI4WhBFPtnwhMoXAuD/giphy.gif
D = imread('D-Pine_Black.jpg');
Dflat = any(D, 3);
Df = uint8(repmat(Dflat, 1, 1, 3));
[n, k] = size(Dflat);
t = 25;
C = imread('../New_hampshire_colors.jpg'... |
b9eb7fb54bdd74a85cb939559aae12b2394dfb356c1b5d3e9213df1b759d835a | MATLAB | 2,489 | 75 | % pop_importev2() - merge a neuroscan EV2 file with input dataset
% (pop out window if no arguments).
%
% Usage:
% >> OUTEEG = pop_importev2( INEEG ); % pop-up window mode
% >> OUTEEG = pop_importev2( INEEG, filename);
%
% Inputs:
% INEEG - input EEGLAB data structure
% filename ... |
4187d9f38d6369a4a2de3eb1067cf97f1dd0546f20371d8033f68a64e3a5aca6 | MATLAB | 2,491 | 77 | %% Performs k-means clustering to classify the datasets into 2 groups based on their mean and variability
clearvars -except Fig3Ddata highsync lowsync;
% Clear all variables except those needed: Fig3Ddata, highsync, lowsync
% Copy data for manipulation to avoid overwriting original variables
ftemp = Fig3Ddata;
h... |
e99c1b7324a2285ed9a6d8dc7358207b4843ad137e0c1b20a46088b5547d2988 | MATLAB | 2,491 | 90 | function x = subsasgn( x, S, y )
% Disciplined convex/geometric programming information for SUBSASGN:
% Subscripting can be used to change values of elements or slices
% of CVX variables in the same manner as with numeric arrays. All
% conventions are preserved, including the colon ':' and 'end'
% ... |
0252bb8f655c0bbc50fcd28384c21c22827f424f0073e3235d19772a3f02d2dc | MATLAB | 2,492 | 73 | function codeKeeper = syncPatternFinderNSx(filenameNSx)
% syncPatternFinderNSx
%
% Canculated the unique 8-bit code and the associated timestamp of the SYNC
% pulse of the NSP.
%
% Use codeKeeper = syncPatternFinderNSx(filenameNSx)
%
% All input arguments are optional. Input arguments can be in any order.
%
% fil... |
f6955685f6064ccb209bd2e8a043ab114ee328ccf0687b814a400de954673b37 | MATLAB | 2,496 | 90 | function afv=ea_concatfv(fv,usecork,reduce)
if ~exist('reduce','var')
reduce=0;
end
if ~exist('usecork','var')
usecork=0;
end
if isa(fv, 'matlab.graphics.primitive.Surface')
fv = arrayfun(@(x) surf2patch(x,'triangles'), fv);
end
dataTrimmed = 0;
for f=1:length(fv)
if size(fv(f).vertices, 1) < size(fv... |
263d380121cd2ff7ff6e2a0a3c7af35b24c3a54f0f62b1fa441943ab3dfa90eb | MATLAB | 2,497 | 74 | function [ ] = run_cdiff_crossvalidation( )
% This file is a part of the MDSINE program.
%
% MDSINE: Microbial Dynamical Systems INference Engine
% Infers dynamical systems models from microbiome time-series datasets, and
% predicts biologically relevant behaviors of the ecosystems.
% Copyright (C) 2015 Vanni Bucci, Ge... |
63ef355e1117cb515f6081a48e3a7254f8425ba212dd210aa5c83c44f1dd10af | MATLAB | 2,497 | 75 | function CBIG_testRetest_k3(rid_prob, rid_prob_new, rid_colors, dotSize, lineColor)
% CBIG_testRetest_k3(rid_prob, rid_prob_new, rid_colors, dotSize, lineColor)
%
% Written by CBIG under MIT license: https://github.com/ThomasYeoLab/CBIG/blob/master/LICENSE.md
inputname(2)
% Match
prob_old = [];
prob_new = [];
color... |
78d1463880ea5c4ce6e23c95fd072c50551c2a7f5e679d83a2dd830318884baf | MATLAB | 2,497 | 77 | % inputdlg2() - inputdlg function clone with coloring and help for
% eeglab().
%
% Usage:
% >> Answer = inputdlg2(Prompt,Title,LineNo,DefAns,funcname);
%
% Inputs:
% Same as inputdlg. Using the optional additionnal funcname parameter
% the function will create a help button. The help message will... |
9eee752b191d169c61e9f23d9621293b62eccb8dd107e3a809fc660515a0575c | MATLAB | 2,499 | 54 | % Contact ythomas@csail.mit.edu or msabuncu@csail.mit.edu for bugs or questions
%
%=========================================================================
%
% Copyright (c) 2008 Thomas Yeo and Mert Sabuncu
% All rights reserved.
%
%Redistribution and use in source and binary forms, with or without
%modification, a... |
f4cb06db20a7797bf46629926db8296520385564f301208beed11ccb28a380cc | MATLAB | 2,499 | 76 | function mineig = minpsdeig(x,K)
% mineig = minpsdeig(x,K)
%
% MINPSDEIG Computes the smallest spectral coefficients of x w.r.t. K
% Uses an iterative method if the matrix is large, takes the minimum of all
% the eigenvalues if the matrix is small.
%
% ********** INTERNAL FUNCTION OF SEDUMI **********
%
% See also se... |
87b26a36366aa01030fd03e4f0141a0a38e31c0cb04740a7766b6702afc501a8 | MATLAB | 2,501 | 80 | %%***************************************************************
%% logcheby: logarithmic Chebyshev approximation problem.
%% SDP formulation.
%% minimize t
%% x,t
%% such that 1/t <= (x'*B(i,:))/f(i) <= t, i = 1:p.
%%
%% B = pxm matrix, f = p-vector, p > m.
%%
%% Ref: Vanderberghe... |
bbec9d06df8519eb8432bfc5e428fedfeeea36b077823d9176dfbd34a4ce6ce9 | MATLAB | 2,501 | 73 | % pop_copyset() - Copy the current EEG dataset into another dataset.
%
% Usage:
% >> ALLEEG = pop_copyset(ALLEEG, index1); % pop-up
% >> [ ALLEEG EEG CURRENTSET ] = pop_copyset(ALLEEG, index1, index2 );
%
% Inputs:
% ALLEEG - array of dataset structure
% index1 - input dataset number
% index2 - in... |
c889d8047d3ebb2c5d269b99871a76430ccf34fdaae52f2b3f1214a8bc9128fb | MATLAB | 2,502 | 71 | function LeG_setdefaultbutton(figHandle, btnHandle)
% WARNING: This feature is not supported in MATLAB and the API and
% functionality may change in a future release.
%SETDEFAULTBUTTON Set default button for a figure.
% SETDEFAULTBUTTON(BTNHANDLE) sets the button passed in to be the default button
% (the button and ... |
f8ba1f4aa44563ae839a02c475e35945d3f0a68a984fcdd1e56602a4766cd78c | MATLAB | 2,502 | 64 | function r = lambdaReference(kind, varargin)
%LAMBDAREFERENCE Reference largest Lyapunov exponent, with its provenance.
%
% r = nonantest.lambdaReference('skewtent', 0.3)
% r = nonantest.lambdaReference('lorenz')
%
% Returns a struct:
% r.nats lambda1 in nats per unit time (per iteration for maps)
% r... |
13d2d038e3203e3d0145e689dd13198e09f7243e70a5ba1a7134074c3a52229e | MATLAB | 2,503 | 57 | function [Gprime, Gprimeprime, omega1, omega2] = get_complex_modulus(stress, strain, omega, dt)
% GET_COMPLEX_MODULUS Extract the storage and loss moduli (G', G'') from
% stress and strain time series under oscillatory (harmonic) shear.
%
% [Gprime, Gprimeprime, omega1, omega2] = GET_COMPLEX_MODULUS(stress,
% stra... |
cb104fae96bfa4da718494ca9330c7587aadc51e329a3b2b1a16e8e528653678 | MATLAB | 2,503 | 88 | function matrixOut = smooth2a(matrixIn,Nr,Nc)
% Smooths 2D array data. Ignores NaN's.
%
%function matrixOut = smooth2a(matrixIn,Nr,Nc)
%
% This function smooths the data in matrixIn using a mean filter over a
% rectangle of size (2*Nr+1)-by-(2*Nc+1). Basically, you end up replacing
% element "i" by the mean of the r... |
175e2ca1cefa1ef02553ed35843f1c19930aa8e9ba622a2b079d737d4b0b86a8 | MATLAB | 2,505 | 86 | function y=parseBiopac(fname,trigCh,trigs,samples,chIDlist)
% Usage ... y=parseBiopac(fname,trigCh,trigs,samples,chIDlist)
%
% For ex.
% parseBiopac('MyACQfile.acq','StimON');
% parseBiopac('MyACQfile',[],[],123456+[-5000 25000]);
% parseBiopac('MyACQfile','StimON',[2:11],[-5000 25000]);
if nargin<3,
trigs=[... |
f1cc6418596e9a237ba39446716ed763659c73fc6bc993ccbdbd22be28754a68 | MATLAB | 2,505 | 93 | % eeg_emptyset() - Initialize an EEG dataset structure with default values.
%
% Usage:
% >> EEG = eeg_emptyset();
%
% Outputs:
% EEG - empty dataset structure with default values.
%
% Author: Arnaud Delorme, CNL / Salk Institute, 2001
%
% See also: eeglab()
% Copyright (C) 2001 Arnaud Delorme, Salk Institute, a... |
3bb4360dee94ce2ac87b9bdfd45380c59076a0e96a68e8d34fde0fd442158d63 | MATLAB | 2,506 | 83 | function [tok] = tokenize(str, sep, rep)
% TOKENIZE cuts a string into pieces, returning the pieces in a cell array
%
% Use as
% t = tokenize(str)
% t = tokenize(str, sep)
% t = tokenize(str, sep, rep)
% where
% str = the string that you want to cut into pieces
% sep = the separator at which to cut (default ... |
ba56cb21955253f06e8f8b014e56626ce3608e7eeeb666ba766668ab97d00e7f | MATLAB | 2,506 | 68 | % Contact ythomas@csail.mit.edu or msabuncu@csail.mit.edu for bugs or questions
%
%=========================================================================
%
% Copyright (c) 2008 Thomas Yeo and Mert Sabuncu
% All rights reserved.
%
%Redistribution and use in source and binary forms, with or without
%modification, a... |
089b7c59b690b93cce51dabbabd851a60ea20ec7863182c15cc5f06635892fa9 | MATLAB | 2,507 | 66 | function [listOfNorms,normedVectors]=normList(vectors,doCheck,correctNaN)
%calculates the norm of a list of vectors
%
%SYNOPSIS [listOfNorms,normedVectors]=normList(vectors,doCheck,correctNaN)
%
%INPUT list of vectors (nVectorsXdimension)
% noCheck (optional, true/false, default: true): normList checks for
... |
57f75bace88ebc2756beb11baf37a1b80d3bf755c3f2ae42bf192ff130b0e2de | MATLAB | 2,507 | 60 | function [traj] = wrap_numIntTrajFromSamples(T_sample,t0,t_end,dt,perturbations,experimentBlocks,pathogen_ID,pathogen_t0,Y0_ex_pathogen,Y0_pathogen,med_biomass,med_counts,glv_params,assumeStiff)
% This file is a part of the MDSINE program.
%
% MDSINE: Microbial Dynamical Systems INference Engine
% Infers dynamical syst... |
caab12c7a03db9b266bff8eb788be2d6a659f391a5b8ecfc199417b7c8cfadba | MATLAB | 2,507 | 66 | function [cp,selectFeature,featureWeight,featureCOH] = interCOHBinclass(datatrial,trialtag,fold,featureNumber,freBand)
alphaTrainset = permute(EEGfilter(permute(datatrial,[2 1 3]),freBand,'BP',5,'all',500),[2 1 3]);
% Measure the coherence
alphaCOH = zeros(sum(1:61),size(alphaTrainset,3));% The array to store the IS... |
19b817e777f38e3482c06947e5478128895c9743fa7b664e14fb4fe62d9ff98d | MATLAB | 2,509 | 86 | function [ WPNEW,DPNEW,WONEW] = CreateCollocationTopics( C,Z,WO,DS,WS,T, MAXC )
%% Function CreateCollocationTopics
%
% Create new vocabulary and topic counts based on collocation model output
%%
% |[ WPNEW,DPNEW,WONEW] = CreateCollocationTopics( C,Z,WO,DS,WS,T,MAXC)|
% creates a new vocabulary |WONEW| and new sp... |
90994b9098ca5fd904c94ee0d4eb6e377a957cf2369e57c3835d1f5f8c16174d | MATLAB | 2,509 | 74 | % FROMPACK Converts a cone problem in SDPPACK format to SEDUMI format.
%
% [At,c] = frompack(A,b,C,blk) Given a problem (A,b,C,blk) in the
% SDPPACK-0.9-beta format, this produces At and c for use with
% SeDuMi. This lets you execute
%
% [x,y,info] = SEDUMI(At,b,c,blk);
%
% IMPORTANT: this function assumes that th... |
85919aeb1eda47eb0d4fe58937f8c13a9870fa41fd99f5233bf0404519b8d0f3 | MATLAB | 2,511 | 85 | function gcdf = palm_gcdf(G,df1,df2)
% Convert a pivotal statistic computed with 'pivotal.m'
% (or simplifications) to a parametric p-value.
% The output is 1-p, i.e. the CDF.
%
% Usage:
% cdf = palm_gcdf(G,df1,df2)
%
% Inputs:
% G : G or Z statistic.
% df1, df2 : Degrees of freedom (non infinite).
% ... |
0151ee8cc0eb0e3a687eca60ee3e5976d1bd32f96273249ea3f924424a5e24e1 | MATLAB | 2,512 | 100 | function [adfreq, n, ts, fn, d] = nex_cont(filename, varname)
% nex_cont(filename, varname): Read continuous variable from a .nex file
%
% [adfreq, n, ts, fn, d] = nex_cont(filename, varname)
%
% INPUT:
% filename - if empty string, will use File Open dialog
% varname - variable name
%
% continuous (a/d) ... |
67f1a3975df51beb907c4299e8421ce525dc36a581bd80a37100244ac80c0297 | MATLAB | 2,512 | 73 | function cvx_optpnt = convex_poly_coeffs( deg, mm ) %#ok
%CONVEX_POLY_COEFFS Coefficients of convex degree-n polynomials.
% CONVEX_POLY_COEFFS(DEG), where DEG is a nonnegative integer, creates a
% CVX vector variable of length DEG+1 and treats its values as
% coefficients of a polynomial (in the same sense as... |
0ca9fee9c90617c0570440ae219289d4934e068010471f094093028b968e09d3 | MATLAB | 2,514 | 66 | function [BAPremoval_coef, trace_BAPremoval] = ...
BAPupdate_GUI(dff_all, BAPremoval_coef, trace_BAPremoval, BAP_current, scrsz, titlename, spID)
pos_BAPremove = round([50 scrsz(4)*0.4 min(scrsz(3)/2,550) min(scrsz(4)/2, 400)]);
minF = 0;
for k = 1:size(dff_all, 2)
trace_current = dff_all(:,k);
yvalue = t... |
1bcd4cc4e535328919ee6a551b2aa689dc1723842a6493947eefe780b9d249df | MATLAB | 2,515 | 65 | %% PaCER/EXAMPLE_2_1.m - Longitudinal Datasets and Plot of Segmentations and simplified VTA
%
% Andreas Husch
% Centre Hospitalier de Luxembourg (CHL) / Luxembourg Centre for Systems
% Biomedicine (LCSB), University of Luxembourg
% mail@andreashusch.de / husch.andreas@chl.lu
% 2017
%
%% Make sure all PaCER files (incl... |
2aa9b428fa4b9dd4d38e2326cff7f1f324293d63219c4a12abb0efa8015b7a49 | MATLAB | 2,515 | 76 | function [NEV] = mergeNEV()
%%
% Saves a new NEV file that contains event data from one NEV and spike data
% from another
%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
% Use: mergeNEV()
%mergeNEV version = '1.0.0.0';
%Author: Nick Halper
%Contact: nhalper@blackrockmicro.com
%%
% Choo... |
502d6b1e3329d9a667fe1942ca5257d14ddb5d10d1e5cda662d308376a6e4a72 | MATLAB | 2,515 | 57 | % SOFA API - demo script
% Copyright (C) 2012-2013 Acoustics Research Institute - Austrian Academy of Sciences
% Licensed under the EUPL, Version 1.1 or – as soon they will be approved by the European Commission - subsequent versions of the EUPL (the "License")
% You may not use this work except in compliance with t... |
624fb158891a3b15873df1312808431ccc826a4a2e19413e52905d5f91e4da98 | MATLAB | 2,515 | 107 | function y = norms( x, p, dim )
%NORMS Internal cvx version.
%
% Size check
%
narginchk(1,3);
try
if nargin < 3, dim = []; end
[ x, sx, sy, zx, zy, nx, nv, perm ] = cvx_reduce_size( x, dim ); %#ok
catch exc
error( exc.message );
end
%
% Check second argument
%
if nargin < 2 || isempty( p ),
p... |
7f6c5ed3cd9d18ba98c142c7e8547c0bf27f21e6ab395b0c4f32f58694402657 | MATLAB | 2,516 | 80 | % Chebychev design of an FIR filter given a desired H(w)
% "Filter design" lecture notes (EE364) by S. Boyd
% (figures are generated)
%
% Designs an FIR filter given a desired frequency response H_des(w).
% The design is judged by the maximum absolute error (Chebychev norm).
% This is a convex problem (after sampling i... |
40443fbef7ba83ecfe9f79e540a80cc8a3f784de8db1870f247c7a87682831a8 | MATLAB | 2,518 | 75 | function lines = cvx_error( errmsg, widths, useline, prefix, chop )
% CVX_ERROR Formats text for inclusion in error messages.
% This is an internal function used by CVX. It needed to be in the CVX
% home directory so that it's available during a fresh installation.
if ~ischar( errmsg ),
if strncmp( errmsg... |
8fd02a39b08726f4194b6359f7d21e9891b817f609eb17c0a2d497931bc5e19e | MATLAB | 2,518 | 77 | function [m,ll,ul,llj,ulj]=den_jack(X,family,varargin)
% Function to compute smooth estimates of the mean of x using locfit,
% the corresponding confidence intervals, and jackknife estimates of
% the confidence intervals
% Usage: [m,ll,ul,llj,ulj]=den_jack(x)
%
% Inputs:
% X: data in the form samples x trials
... |
bb10342c4f9e5e34ceaff372c0e470c5ba8f8c4caef794b6b2744b8b62e469a2 | MATLAB | 2,518 | 60 | function [LL, Ld, Lskip, Ladd] = blkchol(L,X,pars,absd) %#ok
% [L.L, L.d, L.skip, L.add] = blkchol(L,X,pars,absd)
%
% BLKCHOL Fast block sparse Cholesky factorization.
% The sparse Cholesky factor will be placed in the fields L.L, L.d;
% the symbolic factorization fields remain unchanged.
% On input, L should ... |
cd4e57226b0bfdd79e02da91d88e2f12401eb0cd987aa7b03489ac3f6ddd5a23 | MATLAB | 2,518 | 67 | function test_shortest_paths
%%
msgid = 'matlab_bgl:test_shortest_paths';
%% all_shortest_paths
Dtrue = [0 1 -3 2 -4; 3 0 -4 1 -1; 7 4 0 5 3; 2 -1 -5 0 -2; 8 5 1 6 0];
load('../graphs/clr-26-1.mat');
D = all_shortest_paths(A);
if any(any(D ~= Dtrue))
error(msgid, 'all_shortest_paths returned an incorrect distance... |
53bb7310fcbef6457cca34af058ce4b50c3e6962dbb6c4290d1bbeb716f90694 | MATLAB | 2,519 | 88 | function [matsurf,labels]=ea_showconnectivitypatch(resultfig,pV,mX,thresh,atlaslegend,atlasindices,usecolormap,showregs,showlabels)
matsurf=[];
labels=[];
if showregs
tmX=abs(mX)>thresh;
options.prefs=ea_prefs('');
if options.prefs.hullsmooth
tmX=smooth3(tmX,'gaussian',options.prefs.hullsmooth);
... |
7f2e30df430580f3cc1b2c49117d0c17363a0bda264995adea645e576b705007 | MATLAB | 2,520 | 87 | function seg=bbxflatsegment(node,loop)
%
% seg=bbxflatsegment(node,loop)
%
% decompose edge loops into flat segments along the x/y/z
% planes of the bounding box
%
% author: Qianqian Fang, <q.fang at neu.edu>
% date: 2008/04/08
%
% input:
% node: x,y,z coordinates of each node of the mesh
% loop: input, a s... |
90b55e8ef879e759cea378082c96965685dea9d1deaf592a77d0cc98f5065e1a | MATLAB | 2,520 | 60 | function dynamicBC_Reslice(PI,PO,NewVoxSize,hld,TargetSpace)
% PI - input filename
% PO - output filename
% NewVoxSize - 1x3 matrix of new vox size.
% hld - interpolation method. 0: Nearest Neighbour. 1: Trilinear.
% TargetSpace - Define the target space. 'ImageItself': defined by the image itself (correspond... |
2d33895c8161012ba675bd577e7c8104016282fa4118961e81bcbefe868b2507 | MATLAB | 2,523 | 60 | % Contact ythomas@csail.mit.edu or msabuncu@csail.mit.edu for bugs or questions
%
%=========================================================================
%
% Copyright (c) 2008 Thomas Yeo and Mert Sabuncu
% All rights reserved.
%
%Redistribution and use in source and binary forms, with or without
%modification, a... |
5738fe21b330d98f7618e6f596eb543b99694cc97f47ebbdbd079d0b9e8fd43a | MATLAB | 2,523 | 84 | function timestamps = edgeDetect(signal, threshold, type)
% edgeDetect
%
% Detects rising or falling edges of a signal whenever the signal crosses
% the threshold.
%
%
% Use timestamps = edgeDetect(signal, threshold, type)
%
% Variables fname and threshold are optional.
%
% signal: Name of the file to be ope... |
68a2a7029e6ef44dc849e668756760c3e48dccca22337679842e61350a3b3a88 | MATLAB | 2,523 | 43 | function bool = isoctave()
%ISOCTAVE True if the operating environment is octave.
%
% Usage: t = isoctave();
%
% ISOCTAVE returns 1 if the operating environment is Octave, otherwise
% 0 (Matlab)
%*****************************************************************************
% Copyright (c) 2010-2012 Qua... |
49dd5567f69b5592f4951fa770b7817210292a29d821128c35c7f0bfa74e0c3d | MATLAB | 2,525 | 82 | function breadth_first_search(A,u,bfs_visitor,varargin)
% BREADTH_FIRST_SEARCH Fully wrap the Boost breadth_first_search call
% including the bfs_visitor.
%
% breadth_first_search(A,u,vis) performs a breadth first traversal
% of A starting from vertex u. For each event defined by the bfs_visitor
% structure below, t... |
4362149bcd2064885e1b21b966b2ed1596027bc5158821174242ac6d62c87718 | MATLAB | 2,529 | 70 | function rid_durations = CBIG_compute_disDura(subInfoFile, GMICVFile, K)
% rid_durations = CBIG_compute_disDura(subInfoFile, GMICVFile, K)
%%% Fetch onset year
%
% Written by CBIG under MIT license: https://github.com/ThomasYeoLab/CBIG/blob/master/LICENSE.md
fileID = fopen('//share/users/imganalysis/yeolab/data/ADNI_... |
d45205c0fa2005b08152f144b1675a8d1bc71b4261a59fafb770fccc5dc92150 | MATLAB | 2,530 | 79 | function [x, y, bodyline, sqr] = FindFly(chunk, sqrsize)
%FINDFLY
%
% Usage:
% [x, y, bodyline, sqr] = FindFly(chunk, sqrsize)
%
% This function takes in a single image matrix (chunk) and finds the fly.
% First, it finds the brightest pixel in the image, then grabs a square
% of size 2*sqrsize pixels around the f... |
8d919c91b58bd96adf628db66889cd09abd44877031621e71a0f43c07fa1a5ac | MATLAB | 2,532 | 65 | function X = fruchterman_reingold_force_directed_layout(A,varargin)
% FRUCHTERMAN_REINGOLD_FORCE_DIRECTED_LAYOUT A force directed graph layout
%
% Compute the layout for an unweighted, undirected graph.
% See
% http://www.boost.org/doc/libs/1_36_0/libs/graph/doc/fruchterman_reingold.html
% for information about the ... |
b1d8e0426349f28835511791a351e665f33dcc2bf280d2cfaed89225d17d5a59 | MATLAB | 2,532 | 76 | function [] = convertClu2Kwik(varargin)
% USAGE
% [] = restoreOriginalKwik(kwikfile)
%
% INPUTS
%
% kwikfile - filename of .kwik file in current working directory
%
% OUTPUT
%
% this function restores the original klustakwik results to the /main branch of the .kwik file
% David Tingley, 2017
p = inputParser;
add... |
1a1a00cca8c0d01f0ddd12fa31998ac61d5d25b2888e9f731bdb65ed4a798f11 | MATLAB | 2,534 | 47 | % eeg_helphelp() - How to use EEGLAB help.
%
% EEGLAB MENU:
% Each EEGLAB menu item calls a Matlab function from the commandline. If this
% function pops up a graphic interface window, the figure title usually
% contains the name of the function that the window will call. EEGLAB help
% files are thus simply the col... |
9469ff5140236b294ed95a87357182d43b5f9dadd9b180047bbf3e9391c85ba4 | MATLAB | 2,535 | 62 | function Y_ds = downsample_data(Y,direction,tsub,ssub,nrm)
% downsampling for 2d or 3d imaging data (already loaded in memory)
% INPUTS
% Y: input dataset in 2D+T or 3D+T format
% direction: direction of downsampling: 'space','time','spacetime'
% tsub: degree of downsampling in time
% ssub: ... |
0224b3ee427bfefeb501b1954207bc89d8db0b2c31efe7141a2ec12ba6768060 | MATLAB | 2,537 | 71 | function pointsw = ea_antspy_apply_transforms_to_points(points, transform, useinverse)
% Wrapper for ANTsPy's apply_transforms_to_points function
arguments
points {mustBeNumeric} % N*3 Input coordinates
transform {mustBeText} % Transform or Lead-DBS patient folde... |
9a0b0c77cfabeaa09a4e7f5dad5aace17df72f71c639246c617390a36e3f52ca | MATLAB | 2,540 | 58 | function p_fwe = tfce_fwe_from_null(tfce_real, TFCE_null_max)
% tfce_fwe_from_null Voxelwise FWE-corrected p from a max-statistic null.
%
% p_fwe = tfce_fwe_from_null(tfce_real, TFCE_null_max)
%
% Implements the standard permutation FWE correction (Smith & Nichols 2009):
% each voxel's observed statistic is comp... |
b9f32215187d66f4acd661718de22fcf08383b4e7993e2b650dc9cb137151130 | MATLAB | 2,541 | 63 | % CircStat Toolbox
% Toolbox for circular statistics with Matlab
%
% Descriptive Statistics.
% circ_mean - Mean direction of a sample of circular data
% circ_median - Median direction of a sample of circular data
% circ_r - Resultant vector length
% circ_var - Circular variance
% circ_std ... |
55da713f5aae7d56e4b3ab55269d3afff8592c85b96654f0cfa6609b71347330 | MATLAB | 2,542 | 81 | function [times,id,group] = CCGParameters(varargin)
%CCGParameters - Reformat time series for CCG computation
%
% USAGE
%
% [times,id,group] = CCGParameters(series1,group1,series2,group2,...)
%
% series1... time series (one column) with optional IDs (in the second
% column, such a... |
db4465592657d1416708bb6141b41a04cbf6647c7bc58243a593fb7365977ded | MATLAB | 2,542 | 76 | function CBIG_ASDf_mean2mat(inputDir, outputDir, k, r, scalelim)
% CBIG_ASDf_mean2mat(inputDir, outputDir, k, r, scalelim)
%
% This function computes factor-specific RSFC patterns (i.e., E(RSFC patterns|Factor)),
% plot it and save it as a 419x419 matrix.
%
% Input:
% - inputDir:
% Absolute path to the di... |
f8bc3da3ff65ea25b3b612fb8c87369adbc6a1b0190d26c889be79073dad8e8f | MATLAB | 2,542 | 59 | function [outdata, outsform1, outroi] = cifti_struct_dense_extract_volume_structure_data(cifti, structure, cropped, dimension)
%function [outdata, outsform1, outroi] = cifti_struct_dense_extract_volume_structure_data(cifti, structure, cropped, dimension)
% Extract the data for one cifti volume structure, expa... |
fdc2708181a23b692bba9daff5d50bbd4b88c8b1dff34794e07669167202d9a6 | MATLAB | 2,542 | 65 | function FLAG = flag_implicit_skip_nan(i)
% FLAG_IMPLICIT_SKIP_NAN sets and gets default mode for handling NaNs
% 1 skips NaN's (the default mode if no mode is set)
% 0 NaNs are propagated; input NaN's give NaN's at the output
%
% FLAG = flag_implicit_skip_nan()
% gets current mode
%
% flag_implicit_skip_nan(FLAG)
... |
b0e81e18a777ca25adade7bb446eedba22ed9387e10d91fd7aa167449b3ab99e | MATLAB | 2,544 | 50 | function [ADAS, MMSE, NEUROBAT] = CBIG_MMLDA_behavior_choose(phase)
% [ADAS, MMSE, NEUROBAT] = CBIG_MMLDA_behavior_choose(phase)
%
% This function reads in the ADNI1_behavior_choose.csv or ADNI2_behavior_choose.csv
% into matlab and get the filednames, description, sign, category of ADAS, MMSE
% and NEUROBAT behavior s... |
01dd223b3ffc46cb86aae610decf25bcef2b96b6e93cc6f34aedc991ecf68c6e | MATLAB | 2,547 | 50 | % Contact ythomas@csail.mit.edu or msabuncu@csail.mit.edu for bugs or questions
%
%=========================================================================
%
% Copyright (c) 2008 Thomas Yeo and Mert Sabuncu
% All rights reserved.
%
%Redistribution and use in source and binary forms, with or without
%modification, a... |
d0d1ad335a001460f01c7337cac14f82ce6ecac4474a2651e60988c1100f2924 | MATLAB | 2,548 | 68 | function y = quad_form( x, Q, v, w )
%QUAD_FORM quadratic form.
% QUAD_FORM(x,Q) is real(x'*Q*x) = x'*((Q+Q')/2)*x.
% QUAD_FORM(x,Q,v,w) is real(x'*(Q*x+v)+w).
%
% x must be a row or column vector, and Q must either be a scalar or
% a square matrix with the same number of rows as x. If supplied, v must
% be ... |
d62199bddc614080643628fe003acacb1bb09d1bb4c9bd634d6dcc08f139557d | MATLAB | 2,548 | 82 | function [ts_bold] = run_bold(topology, homparam, hetparam, stim, tol)
% Compute the BOLD response, which is approximated as the zero frequency component of the underlying stimulus evoked response
% ts_bold(r) = sum_n=0^\infty phi(r, t = ndt).
% List of step-size inputs (topology)
% T: time domain [0, T]
... |
320660cf3c38c0f57a330bfd4ef50551b6b0c968e1f0a6b68e6506007b12c2f8 | MATLAB | 2,550 | 74 | function [As,A,eil,Ei] = indexed_sparse(i,j,v,m,n,varargin)
% INDEXED_SPARSE Create a sparse matrix with indexed edges.
%
% [As,A,eil,Ei] = indexed_sparse(i,j,v,m,n) creates a sparse matrix A just
% like A = sparse(i,j,v,m,n). However, indexed_sparse returns additional
% information. The matrix As is a structural mat... |
6f787fb6c4a7ee9b8dc8b30973ce727d9df59e1be6f556cdc6bf8db9e7ac0e7d | MATLAB | 2,553 | 79 | function [A coords] = grid_graph(varargin)
% GRID_GRAPH Generate a grid graph or hypergrid graph
%
% [A xy] = grid_graph(m,n) generates a grid graph with m vertices along the
% x axis and n vertices along the y axis. The xy output gives the 2d
% coordinates of each vertex.
% [A xyz] = grid_graph(m,n,k) genera... |
fe5efbe1e6f1c32ecfb72e8a8d048c22615583dc9764f5f15d15bcbbc1289bf4 | MATLAB | 2,553 | 87 | %% New features in MatlabBGL version 4.0
% MatlabBGL 3.0 was only released as a beta test. Version 4.0 is a
% full release with quite a few new features.
%% Improved reweighted graphs
% In MatlabBGL 3.0, reweighted graphs were a pain to use. Now they are
% simple! We combine a structural matrix with a weight matr... |
61a2e7fec8191d0a01ff9b014ead6f40989ff891348cb49ef9b10a5cb873af6f | MATLAB | 2,554 | 106 | % Testing script to check some of the PLS Toolbox functionalities
clc; clear all; close all;
addpath('./myPLS_functions')
addpath('./RotmanBaycrest')
addpath('./misc')
%% defining all the inputs
myPLS_inputs
%% run PLS analysis, including permutation testing and bootstrapping
res = myPLS_analysis(input,pls_opts);
... |
66dca8df5c8f3487b0b752a8c779d8eea688194657bcb7d633cb2dc28e8bea2b | MATLAB | 2,554 | 54 | % Contact ythomas@csail.mit.edu or msabuncu@csail.mit.edu for bugs or questions
%
%=========================================================================
%
% Copyright (c) 2008 Thomas Yeo and Mert Sabuncu
% All rights reserved.
%
%Redistribution and use in source and binary forms, with or without
%modification, a... |
bed3fcfa958b11c9409e49e82301061ae8e3a07cb3e60922eb1d74b1584ea391 | MATLAB | 2,554 | 84 | function pointsw = ea_ants_apply_transforms_to_points(points, transform, useinverse)
% Wrapper for antsApplyTransformsToPoints used for both linear
% transformation and non-linear transformation
arguments
points {mustBeNumeric} % N*3 Input coordinates
transform {mustBeText} ... |
2f35f69bc8f5f006f0e213cd4408ba62880fbfd27ccc7bf146c931400b125a00 | MATLAB | 2,556 | 60 | % This code simulate gradient echo (GRE) data: Magnitude and phase ( total, positive, and negative) (see README.md
% for more details).
%%%%%%%%%%%%%%%%%%%%% VARIABLES %%%%%%%%%%%%%%%%%%%%%%%%
%%% Inputs: %%%
% Chimap_file- 3D total susceptibility map
% Chiposmap_file- 3D positive susceptibility map
% Chinegm... |
8395dd54a26c3e302962198891f2196bb88fb0e809f258ee65ee25ffa8dc4029 | MATLAB | 2,556 | 62 | function dff2(foldername,Ypix,Xpix)
%% load files
% Folder with stack images of diferent sessions
%foldername='Z:\Andrew\2-photon imaging\vt019532\vt019532_f3e4_010_corr'; %path to image folder
cd(foldername);
listfiles = dir('*.tif'); %will look for all the tif files
% !!! Files are listed in alphabetical order... |
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