sha256 stringlengths 64 64 | language stringclasses 28
values | size int32 1 491k | lines int32 1 23.2k | content stringlengths 1 200k |
|---|---|---|---|---|
79a3bedec922ba5062e1067e51f8c0b5d7d65190c4a9c0b21e18814e22ef8ed4 | MATLAB | 7,114 | 191 | function [map,lo,hi] = cubehelix(N,start,rots,sat,gamma,irange,domain)
% Generate an RGB colormap of Dave Green's Cubehelix colorscheme. With range and domain control.
%
% (c) 2015 Stephen Cobeldick
%
% ### Function ###
%
% Returns a colormap with colors defined by Dave Green's Cubehelix colorscheme.
% The colo... |
0e7e30e0169fc99df35b167d589fdf7c17af8df5e35067a34a7c5a0d04993c21 | MATLAB | 7,116 | 213 | function FigureS12d_Motionenergy_single
workpath='G:\Ishizu_data\movie\i34\20211119_AC';
cd(workpath);
close all;
n=4000;%ms / plot point (long-tone correct/error trial)
%% Get task parameter(Bpod)
temp = dir('Bpod*.mat');
Bpod_file=temp.name;
load(temp.name);
left = find(Chosen_side == 0);
right = f... |
63111679d6e9d09d97ebd93dc4ec11bdc8e4db2221462b25c8a64e4b22312441 | MATLAB | 7,117 | 175 | function viterbi_trans_detection = lsim_fit_detect(obs_seqment_beats, type_det, init_state_1, init_state_2)
C=2;
max_state = 2;
extra.sigma_diag = 1;
extra.plot = 0;
extra.check_convergence = 1;
extra.time_series = 0;
extra.left2right = 1;
max_itration = 5;
batch_size = 1;
batch_size_catch = 5;
num_g... |
9e6749d14dd23ae40312bf003069d4fba6c034911fdd0553fe92d4dadc3a4fb7 | MATLAB | 7,118 | 151 |
function [in_structure_prob, G] = calc_structure_probability(measured_coords, std_dev,structure_coords, st, join_structures)
% measured_coords: a 3-column matrix of measured coordinates for each dot
% std_dev: a 3-element vector of standard deviations for x, y, and z dimensions
% structure_coords: a 3D matrix where... |
02961198c0653a4866ecc9603fd9880e9989f6e42303b1ec11effcf192f5e77b | MATLAB | 7,121 | 183 | function tcplv = TCPLV(eeg, fs, onset_time, varargin)
%
% tcplv = TCPLV(eeg, fs, onset_time)
% tcplv = TCPLV(eeg, fs, onset_time, freq_rng, duration, pairofint, pertnum)
%
% *************************************************************************
% * PLV temporal dynamics estimated within 1sec time-steps for any ... |
a03150ec465e6055a40828fcdce907b4f993501e390bdd45c249f33b4e12e3ce | MATLAB | 7,142 | 197 | %% LDE iteration w/o figures
% L4EmeshX,L4ImeshY,LDEFrfunc: compsed by several different response
% functions, and we choose the best from them for every step
%% Problem for the BG parts: maybe not fine enough!
% Let's involve the previously computed local responses...
%% Starting from the finest function!
% Output: I... |
48bbf286e296d54b8d1d54fe0ab8f8bf6a78ee08721a83a2198e3839bf48e9e4 | MATLAB | 7,143 | 234 | function wavelet_report(app)
%WAVELET_REPORT Summary of this function goes here
% Detailed explanation goes here
cla(app.ax_wavelet_sig1)
cla(app.ax_wavelet_sig2)
cla(app.ax_xwt1)
cla(app.ax_xwt2)
cla(app.ax_xwt3)
[form_idxs,~] = listdlg('PromptString',{'Please select fileformat ',...
''},...
'SelectionMode'... |
6cee5ea4938f2fcb8ad63657776ba5588562ccbcab21531fdb0c9ade76dc411d | MATLAB | 7,143 | 195 | %% Function To save CSV files from Network to Gephi Format
% Functional Network of Neural Ensambles
% Only Significant Activity (!)
% RUN AFTER: Ensemble_Sorting.m
% AÑADIR NODOS DE REFERENCIA ESPACIAL: ESQUINAS DE NEGRO
% AÑADIR NODOS SIN CONEXION PARA AMPLIAR LA DIFERENCIA ENTRE GRUPOS
% Optimizar código
% Input
%... |
b5153754261e1c2140bcd62aae27d83ad6a3195d273e88651880b3f768ead06b | MATLAB | 7,143 | 171 | function Positive_Negative_Both_RLt_Pattern_Sum20200304
path=['C:\Users\C238\Desktop\touchcellLtRt_terashita'];
cd(path);
LS=ls;
SumRLtouchPoint=zeros(1,19);
SumRLtouchFire=zeros(1,19);
X=[];
SumRLtouchUnit=[];
SumRtouchUnit=[];
SumRLtouchPointUnit=[];
SumRtouchPointUnit=[];
for i=1:length(LS(:,1... |
26e1f3c1bb42e182d318bcae8a7c6769a3fbd946c5efe1ec5ed4184b7a25acb9 | MATLAB | 7,149 | 178 | function [ecg, phi] = ecg_gen_twa(N, fs, params, phase_bins, varargin)
% ecg_gen_twa - Synthetic T-wave alternans (TWA) ECG generator
%
% Method: Generates synthetic ECG signals by generating Gaussian mixture
% models with stochastic deviations in the phase domain, followed by
% scaling the T-wave segment with... |
617c5c444ee5686899fd00398ef88e84af4fce31ff4ddd072c889c2c8cfcd37b | MATLAB | 7,150 | 173 | %% EAG_export2mat
% bla
%
% Version: 04-April-24 (R2023a)
% Clean up
clc; clear all; close all;
%% Settings
% --- where can we find the data
SET.path2data = '...\EAG\';
% --- where can we find the CED scripts tp load spike data
SET.path2CEDS64ML = 'C:\CEDMATLAB\CEDS64ML';
% --- where can we find the annotation
SET.p... |
41e83bdf86e2be04834ed1fd3627c19eb49d049993e9844f022dd7d558625d3c | MATLAB | 7,153 | 235 | function wavelet_report(app)
%WAVELET_REPORT Summary of this function goes here
% Detailed explanation goes here
cla(app.ax_wavelet_sig1)
cla(app.ax_wavelet_sig2)
cla(app.ax_xwt1)
cla(app.ax_xwt2)
cla(app.ax_xwt3)
[form_idxs,~] = listdlg('PromptString',{'Please select fileformat ',...
''},...
'SelectionMode'... |
f3c3faf6eebb9ab36976ed276521de5dbc60fc1e5345fd646ec72b18e06d4446 | MATLAB | 7,155 | 171 | close all;
clear;
clc;
resultfname_amp = 'testProcessSeizureEEGPhaseAmplitudeFeatures_AfterDenoising_amp.txt';
resultfname_phase = 'testProcessSeizureEEGPhaseAmplitudeFeatures_AfterDenoising_phase.txt';
% this is the same as the previous one; except that the feature vectors are
% kept in the frequency domain (look at F... |
a9521e4416a29fb7d7d3e1c4452a82444cff77205f8d467c0cf9761dc4f61391 | MATLAB | 7,160 | 194 | function [sig_mat_Y,sig_mat_X1,sig_mat_X2] = Get_Sig(ax,sig_mat)
% TODO:
% when I take the max of other bars, I should also consider their bar+errorbar, not only sig bars.
% The graphics objects for the groups are assumed to be such that the first group is last.
% Error bars are assumed to be plotted using the... |
5cb515f94dce1457d22f443520c0746d9cd12737011ea1c4f804ef5d6ea00ce6 | MATLAB | 7,163 | 198 | %% raincloud_plot - plots a combination of half-violin, boxplot, and raw
% datapoints (1d scatter).
% Use as h = raincloud_plot(X), where X is a data vector is a cell array of handles for the various figure parts.
% Seee below for optional inputs.
% Based on https://micahallen.org/2018/03/15/introducing-raincloud-plot... |
26c265ec352f8bfbbc94b3de0742f8c95d0bc2324cafe841e612e82bf1add27c | MATLAB | 7,168 | 184 | function varargout = RaguRNDOpt2(varargin)
% RAGURNDOPT2 M-file for RaguRNDOpt2.fig
% RAGURNDOPT2, by itself, creates a new RAGURNDOPT2 or raises the existing
% singleton*.
%
% H = RAGURNDOPT2 returns the handle to a new RAGURNDOPT2 or the handle to
% the existing singleton*.
%
% RAGURNDOPT2('C... |
394cc0801196a45c586738b78f1023bbbf144db6e19ccfcf601c9c2e26e9703c | MATLAB | 7,171 | 177 | function M = warping_transform_col(in_vector_boundaries, out_vector_boundaries, interp_order)
% warping_transform - Generates matrices for time-warping one time-series to another (with different lengths).
% This function can be used for ECG phase wrapping, mapping ECG beats of different lengths
% into ECG beats of a fi... |
e297e630d5b89a0d47714daf8fff1d30849537546b9478e1117de54adc1b1b8d | MATLAB | 7,173 | 226 | function Get_spikes(input, varargin)
% PROGRAM Get_spikes.
% Detect spikes and save them in a file.
%
% Saves spikes, spike times (in ms), used parameters and a sample segment
% of the continuous data (optional) in filename_spikes.mat.
%
% input must be:
% A .txt file with the names of the files to use... |
0739d408bb1bd191db80bf6a20b5396587768107fc9d1651d5e17b43a00b1acd | MATLAB | 7,174 | 234 | close all; clear mex;
funtype = 'gpu';
%funtype = 'cpu';
%funtype = 'matlab';
kCNNFolder = '..';
addpath(kCNNFolder);
addpath(fullfile(kCNNFolder, 'matlab'));
if (strcmp(funtype, 'gpu') || strcmp(funtype, 'cpu'))
kMexFolder = fullfile(kCNNFolder, 'c++', 'build');
kBuildFolder = fullfile(kMexFolder, funtyp... |
15526bee7980c597a8579121132096719bb6cc9c571c64b576a8f9fe797ab583 | MATLAB | 7,179 | 223 | clear
close all
clc
% load ECG1
% s = data;
% load ECG2
% s = data(14, 1:end);
% s = randn(1, 10000); fs = 1000;
% load ECG3
% s = data(2, 1:end);
addpath 'G:\Sameni\Documents\Papers\Journal 40 (Spline ECG Filtering)\CODES'
pth = 'J:\ECGData\Arrhythmia';
fs = 360;
wd = cd;
cd(pth);
fname = '233';
segstart = 11.2 ... |
d48f3717793099f93223d8ac4ea1d66248858d26a4dd0dc5b8b4a565b91755bb | MATLAB | 7,190 | 192 | %% HPC for large amount of IC tests. Start from NESS
% AngId: 1-13 for 0:7.5:90
% ContrastID: B. "1/2 contrast" = bg + 1/2 * (X_E-bg, X_I-bg)
% C. (normal) full contrast = (X_E, X_I)
% D. super-charged = bg + 3/2 * (X_E-bg, X_I-bg)
% SaveID Just for saving tag
function [] = HPCGlobConvTest2_NES... |
d3920257ab84c8b35b020d0d1062f233fcbed9292d540c4ac004a67f0bb11a4d | MATLAB | 7,198 | 146 | function [multi_matched_peaks_indexes, PeakToPeak_corrected, peak_location_cdi, PeakToPeak_corrected_Rule]=TwoStageSMFPeakDetectorRuleBasedCorrecction(ECG_data, wide_matched_template, narrow_matched_template, type, wide_wlen, narrow_wlen, PP_diff_wlen, PP_diff_th, average_peak_det_rate, fs, flgDbg)
% =================... |
50174b2c5688c61599754ed9ad8d7efe9ce2a0e7945736793b8713cda37f8963 | MATLAB | 7,202 | 188 | % script to assemble information about burst amplitudes related to trial
% outcome, when those bursts appear just before the stimulus. Parts of this
% didn't make it into the final paper.
clear
clc
close all
%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
%%% Parameters
RerunAnalysis = tr... |
9e011553932937a881a7715bec548d32f4bedeab06966e44e7c43d20b934e690 | MATLAB | 7,211 | 196 | %
% Test program for ECG filtering using EKF and EKS
%
% Dependencies: The baseline wander and ECG filtering toolboxes of the Open Source ECG Toolbox
%
% Open Source ECG Toolbox, version 1.0, November 2006
% Released under the GNU General Public License
% Copyright (C) 2006 Reza Sameni
% Sharif University of T... |
11f8256f94e0c7ccb694a2b260e608129eeaccdf88172335d1fc861703a3e6b2 | MATLAB | 7,216 | 164 | function update_correlation_axis(app)
if isempty(app.corre_res)
yyaxis(app.ax_signals_corre,'left')
cla(app.ax_signals_corre)
yyaxis(app.ax_signals_corre,'right')
cla(app.ax_signals_corre)
cla(app.ax_signal1_corre)
cla(app.ax_signal2_corre)
cla(app.ax_corre_1_1_1)
cla(app.ax_corre_1_1_2... |
3da4c5b832d96dfa5fb8bc75eafa664e6293154b0f4557063b07221ed6bd3928 | MATLAB | 7,220 | 134 | clear
close all;
clc
% parameters
ofname = 'SVMOptimizedParamters02.txt';
% % % bins = [50 75 100 120 180 250 300 500 750];%75:6:81;%120;
% % % bins = 120;%50:1:550;%:13:250;%75:7:120;%75:6:81;%120;
% % % bins = 77;
% gmorder = 5;
% dropfeatures = 5;
sigma = 150*ones(1, 7);
% sigma = [181.5 27.0 179 66 111 26 19];
per... |
36ca916a95ff3c9cdf6eb6715b382a769deec6452e38953eb3653cfd70749ff1 | MATLAB | 7,222 | 226 | function Get_spikes(input, varargin)
% PROGRAM Get_spikes.
% Detect spikes and save them in a file.
%
% Saves spikes, spike times (in ms), used parameters and a sample segment
% of the continuous data (optional) in filename_spikes.mat.
%
% input must be:
% A .txt file with the names of the files to use... |
12a49cad0db48047fa7d30a09fa8f26cc5365304c888a255ac0700097c790596 | MATLAB | 7,238 | 244 | function [ChromaticCorrections,ROIs]=mnl_CalculateChromaticAberrationsFromGuideStars_v2
%Same as original but now with coloured figures
%% Input Channel Data
prompt='How many channels are used for imaging?';
nChan=input(prompt);
LaserEx=nan(nChan,1);
for i=1:nChan
LaserQ=sprintf('%s%d%s','Please enter the excitati... |
38360eb14b813ded56884e33603160167e0c43198e4c480b22e7f364c93b847c | MATLAB | 7,239 | 226 | function Get_spikes_folder(input, varargin)
% PROGRAM Get_spikes.
% Detect spikes and save them in a file.
%
% Saves spikes, spike times (in ms), used parameters and a sample segment
% of the continuous data (optional) in filename_spikes.mat.
%
% input must be:
% A .txt file with the names of the files... |
d9afe9467874c8d4269ffe34a49bacb1c03bc2ce25230bb116fbc1ed4559aec0 | MATLAB | 7,242 | 255 | function [x, objective, distance, times, mses] = ...
SALSA(y,OMEGA,tau,n,varargin)
%%%% Parameter values
%% CONVOLUTIONFILTER isAconvfilter = 1 => A is the convolution filter,
%% of the same size as the image and centered
%% isAconvfilter = 0 => A is either a matr... |
35b44085cdd551e67344a6a421e01c6913a5add491a052ac6946aa75d22d0959 | MATLAB | 7,243 | 77 | function addMenu(obj, hFig)
drawnow;
outerPosition = hFig.outerPosition;
hFig.figApply(@set, 'MenuBar','None');
obj.hMenus('FileMenu') = hFig.uimenu('Label', 'File');
uimenu(obj.hMenus('FileMenu'), 'Label', 'Save', 'Callback', @(hO, hE) obj.saveFiles());
uimenu(obj.hMenus('FileMenu'), 'Label',... |
bf5165ce1240144c1a8e0fd9d2579ea92786e5fcd48193013e5a850667de277b | MATLAB | 7,251 | 215 |
%{
----------------------------------------------------------------------------
Determine the time window for task relevant neurons
%Start of task
%Sound on
%Sound off
%Before choice
%After choice (0sec)
%After choice (1sec)
%After choice (2sec)
%p = 0.001
%Each epoch, predict the prior, sensory and choice... |
1c38068e0afb80979a97c77347b7262b36b860619462e04c01aef5467f01a5fb | MATLAB | 7,253 | 231 | clear
close all
clc
% load ECG1
% s = data;
load ECG2
s = data(5, 1:10*fs);
% s = randn(1, 10000); fs = 1000;
% load ECG3
% s = data(2, 1:end);
% addpath 'G:\Sameni\Documents\Papers\Journal 40 (Spline ECG Filtering)\CODES'
% pth = 'J:\ECGData\Arrhythmia';
% fs = 360;
%
% wd = cd;
% cd(pth);
% fname = '233';
% seg... |
26c1d9dc33311713ec9e60e3c3735937578947a0e9d2d123255fe8c40752c622 | MATLAB | 7,260 | 149 | %%Prerequest
%spike data and behavioral data (make sure the part name (end-16:end-4) of
%spike data file is the same with behavioral data file)
%% 1. Retrieve data
disp('select brain region folder about spike data');
Folder_SpikDat = uigetdir('E:\Wang_SpikDat\');
session_str = extractBefore(Folder_SpikDat,"\" + w... |
3ad84f18a315b4ffd02cdee3a2df8ca0be902ed5f730eca55b74893b86e9cee3 | MATLAB | 7,261 | 303 | function ob = fatrix2_block(blocks, varargin)
%function ob = fatrix2_block(blocks, options)
%|
%| Construct fatrix2_block object, a meta-object composed of fatrix2 blocks,
%| such as block_diag(A_1, A_2, ..., A_M)
%| See fatrix2_block_test.m for example usage.
%|
%| in
%| blocks {cell} cell array of the blocks
%|
%| o... |
829ab1467bb3e2f5e5bf58592f6ef761403d231e8a6cdaf10e250a3b6dbea648 | MATLAB | 7,270 | 232 | function making_volume_csv_v2(mat_file_after_converting, dir_root_OG )
% mat_file_after_converting = "HB329.mat";
% dir_root_OG = 'HB329/';
csv_name = '16bit_allen_csv_20200916.csv';
label_file_name = append(dir_root_OG, '/tubemap/elastix_labels_to_resampled/result.tiff');
load(mat_file_after_converting);
... |
1f2de142726ff3fada4fce4579f977a03ea58947d041083089a2d34a6df59e22 | MATLAB | 7,276 | 168 | %%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
% This script plots fitted models to different groups of treated animals,
% using growth and dissemination parameters from untreated animals reported
% in [Benzekry et al., Cancer Res, 2016] (Scenario B)
% It generates the plots of Figure 1C a... |
a109f06e3f4e5407c16ad4ac0fea60606d09a62776eb611c6b80a2838c930394 | MATLAB | 7,280 | 186 | % Response analysis of intracellular PN data recorded by Liza Bessonova
% Two conditions: Before serotonin application
% and After serotonin application
clear
close all
clc
load Liza_all_data_psth.mat
%%
% % Image the raw data
% figure;
% color = customcolormap([0 1], {'#ffffff','#000000'});
% %color2 = cu... |
9069b0ec5e5779340da7ef900460b09a618da98d8a5eba7bf409acae30c3cf6f | MATLAB | 7,286 | 143 | function FSIcount20200108part2
path=['E:\CheetahWRLV20200411'];
FSIsum=0;
Rtcountsum=0;
Ltcountsum=0;
RtLtcountsum=0;
Touchcountsum=0;
Woncountsum=0;
Woffcountsum=0;
WonWoffcountsum=0;
Doncountsum=0;
WoDoncountsum=0;
tDoncountsum=0;
Wotcountsum=0;
tWoDoncountsum=0;
modBgracountsum=0;
mod98coun... |
db725c1eaeb64899ff96c027427c1b8942398202f71de21517045f0cf419b401 | MATLAB | 7,290 | 225 | function points_s = eq_point_set_polar(dim,N,varargin)
%EQ_POINT_SET_POLAR Center points of regions of an EQ partition
%
%Syntax
% points_s = eq_point_set_polar(dim,N,options);
%
%Description
% POINTS_S = EQ_POINT_SET_POLAR(dim,N) does the following:
% 1) uses the recursive zonal equal area sphere partitioning algorith... |
5fe70a6bd4b829ef6a0a783531299f2955ebe91e3e90b709e90488cbaf200306 | MATLAB | 7,305 | 192 | function FourierfunctionRtouch190213
%
% Ú×à¾ð±±ÉLq
global dpath3 tfile fnameACresult ACresultW CCresultDrinkOn SpikeArray RpegTouchallWon LpegTouchallWon TurnMarkerTime RmedianPTTM RpegMedian LmedianPTTM LpegMedian render...
RpNum LpNum OneTurnTime CCresultSpike locsP1time locsP2time locsP1time2 ... |
72b98e823458cdbc0e0a688e2f2823bf3207f737e10118d7db95959097b4bb31 | MATLAB | 7,305 | 201 | function PLV = PLV_RawSig(meth, sig1, fs, f0, varargin)
%
% PLV = PLV_RawSig(meth, sig1, fs, f0)
% PLV = PLV_RawSig(meth, sig1, fs, f0, WS, ndft, pertnum, sig2)
%
% *************************************************************************
% * Calculating Phase Locking Value (PLV) matrix (Pairwise) using raw *
% *... |
6c3fe8fbc0708a7a5688cf4dbf1e11edd1ccbdbc1d6ac79cd53cbacc61c5fd22 | MATLAB | 7,317 | 261 |
%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
% analyzes docking time traces of tir %
% runs through all .traces files in a folder ... |
426a31ad76396ebe94954e57fc296b16cc6125759e63ab74f8c8ce97e9f2319d | MATLAB | 7,322 | 208 | load(cleanupFile)
run([RETROMOCOBOX_PATH '/addRetroMoCoBoxToPath.m']);
% run([MIRT_PATH '/setup.m']);
addpath(SPM_PATH);
%%
fidHTML = fopen([htmlDir '/index.html'],'a');
%% And put the reconstructed images into the html
all_ims = rn([outDir '/GRE_mag']);
all_ims = all_ims(:,:,:,1); % keep just first echo
all_i... |
6cd50b49b6d0363c1137b5368bbeaca048a48df04bd51a70822923ea99781644 | MATLAB | 7,322 | 143 | function MSNcount20200108part2
a=0;
path=['E:\CheetahWRLV20200411'];
MSNsum=0;
Rtcountsum=0;
Ltcountsum=0;
RtLtcountsum=0;
Touchcountsum=0;
Woncountsum=0;
Woffcountsum=0;
WonWoffcountsum=0;
Doncountsum=0;
WoDoncountsum=0;
tDoncountsum=0;
Wotcountsum=0;
tWoDoncountsum=0;
modBgracountsum=0;
mod98coun... |
b1746583e6dc18a3b94440330b2d53df6ec8b487ccf1c0bc4c772f4f178293ba | MATLAB | 7,328 | 245 | %% compare factor analysis results using diff state criteria
fileNames = {'FA_normal';...
'FA_strict';...
'FA_cp'};
plotTitles = {'original'; 'strict'; 'changepoints'};
sessionTags = {'M22027', '20220517';...
'M22029', '20220607';...
'M22031', '20220524';
'M22032', '20220621';
... |
10032294d4fda4c811c5ef78fea6f84efbc792fb1a2bf58f15af3d286530f507 | MATLAB | 7,329 | 170 | function keyPressFigWav(obj, ~, hEvent)
%KEYPRESSFIGWAV Handle callbacks for keys pressed in main view
if obj.isWorking
jrclust.utils.qMsgBox('An operation is in progress.');
return;
end
hFigWav = obj.hFigs('FigWav');
factor = 4^double(jrclust.utils.keyMod(hEvent, 'shift')); % 1 or ... |
c96ff8921328e7a43b4d5ac3f335f2088b982d34353016123147b24f9b29230f | MATLAB | 7,335 | 175 | % Script to read in EEG data for further analysis using FieldTrip
% Triggers on movement offset using the optitrack markers.
% Bad trials are removed and data are saved out for further analysis.
%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
%% Housekeeping
clear all; close all; clc;... |
f5c664321eef83c75056e6fa15a6c4636cddaa87af9188854779c0d92ddc9af9 | MATLAB | 7,340 | 160 | % Copyright 2024 Eelke Spaak, Donders Institute.
% See https://github.com/Spaak/rift-phase-and-visibility for readme/license.
% Belongs with:
% Spaak, E., Bouwkamp, F. G., & de Lange, F. P. (2024). Perceptual foundation and extension
% to phase tagging for rapid invisible frequency tagging (RIFT). Imaging Neuroscie... |
9f89c01ddd19b9b26abc609209e3ec0c9303707291358ebe0a814d7bdfdbc5db | MATLAB | 7,343 | 201 | load(cleanupFile)
run([RETROMOCOBOX_PATH '/addRetroMoCoBoxToPath.m']);
addpath(SPM_PATH);
run([ASPIRE_HOME '/aspire_startup.m']);
%% Run ASPIRE on both noMoCo and MoCo
if nEco == 1 % can't run ASPIRE, but need coil combination...
magData = rn(fullfile(tempDir, 'GRE_5D_mag.nii'));
magData = ssos(magData,5);
... |
aff87d3569948246a193b7b964c880370ebb624af617be9d5cfdbf4014c37d35 | MATLAB | 7,350 | 194 | % Ensembles Transitions: Hebbian Pathway
% Input
% fs: sampling frequency (4 plot only)
% labels_frames: Ensemble Lalbel
% signif_frames: Frames with Significative CoACtivity
% CAG: Coactivitygraphy
% ColorState: Ensemble Color [Nensembles,3]
% If ifplot=1 plot... |
2caabbfaa4cfdcc31e14d364e763b4e5b40781377d30762d8746d0e9234c9853 | MATLAB | 7,356 | 308 | function [opt, extra] = vararg_pair(opt, varargs, varargin)
%function [opt, extra] = vararg_pair(opt, varargs, [options])
%|
%| Process name / value pairs, replacing the "default" field values
%| of the opt structure with the user-specified values.
%| This allows flexible argument order and "named arguments" somewhat ... |
fa8209b5fa73ca697c5aa2e34dd5607951e23d51c054967c218fbfbbd168a58a | MATLAB | 7,365 | 219 | % this script attempts to correct the 'WM' holes
% CORRECTION IS NOT NEEDED AS THE DIFFERENCE IN WM VOLUME DUE TO HOLES IS
% LOWER THAN 0.1% (for HC) and LOWER THAN 0.011% (for MS)!
clearvars
close all
addpath(genpath('/storage/stella/MATLAB_toolboxes/')); % insert the path to NIFTI_studio toolbox
%% combine FAST an... |
1d66b078d507da87a51718e1b44f20690b531fb1207b8ad715437ae38c230e13 | MATLAB | 7,371 | 229 | function RaguMSConfInterval(out)
% Copyright 2009-2011 Thomas Koenig
% distributed under the terms of the GNU AFFERO General Public License
[FileName,PathName] = uiputfile('*.txt','Enter file name');
[fid,err] = fopen(fullfile(PathName,FileName),'wt');
if fid == -1
error(err);
end
FeatLabels = {'Onset', 'Offse... |
af71c78b0febb0ed2781352c3a65f44de6eb09951ca0fe27a292c3374d2b51b5 | MATLAB | 7,374 | 165 | function [growVerts, allThreshVerts, growVertTracker] = growMap(growVerts, growSteps, allThreshVerts, allFaces)
% Expands or Contracts Vertex Sets on a Mesh Over Specified Steps
%
% This function iteratively grows or shrinks clusters of vertices on a mesh by
% adding neighboring vertices (growth) or removing border... |
e2c2e0b10bdb071b712c77458f1982706666207f8e0743f2b74c2cf7a7f9dc29 | MATLAB | 7,382 | 253 | function gui_advc (action)
%
% This file is needed by FASTICAG
% This file holds the callbacks for advanced options -dialog
% 23.8.1999
% Hugo Gävert
%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
% Global variables
% Handle to the window
global hf_FastICA_AdvOpt;
%... |
1603760e449427cd973090ccf6603bc2790b31f73f690a6395740619fad2fa41 | MATLAB | 7,388 | 220 | function [FigA FigB FigC]=PlotRepeatTouchSpike20170823(TouchIntervalSet,SpikeA,NN,PegTouchAll)
%SÄÌ^b`´Ôuðâ³
Hist0=cell(length(NN),4);
SpikeCount=cell(length(NN),4);
SpikeRate=cell(length(NN),4);
Interval0=cell(length(NN),4);
% NumFire=zeros(length(NN),4);
for n=NN
for m=2:4
B=[];
... |
2ac14ffd1216139d734a27c6d26c94ac96f24d6ef4c7ebc1791bf4a4c81b6271 | MATLAB | 7,389 | 261 | function [CA]=mnl_MeasureChromaticAberration(Bead,Im,Scale,BeadID,foldername,figures)
%Function to measure the chromatic aberration of beads. NB this uses the
%code "centerOfMass" written by Jered R Wells. This is added as a
%subfunction below.
%% Calculate the centre of mass for each channel
if strcmp(figures,'y')==1... |
d45c9351119ec4d655432a3fd066b39e031ef97ad501761d925949eac8eea437 | MATLAB | 7,408 | 179 | function phy(hClust)
%PHY Export JRCLUST data to .npy format for Phy
if exist('writeNPY', 'file') ~= 2
warning('Please make sure you have npy-matlab installed and on your path (https://github.com/kwikteam/npy-matlab)');
return;
elseif ~isa(hClust, 'jrclust.sort.DensityPeakClustering')
... |
fdc53072d0e2866204e6482ac15f403f84fcbf8af6fa757f626622ae61dd1555 | MATLAB | 7,417 | 237 | function wavelet_report(app)
%WAVELET_REPORT Summary of this function goes here
% Detailed explanation goes here
cla(app.ax_wavelet_sig1)
cla(app.ax_wavelet_sig2)
cla(app.ax_xwt1)
cla(app.ax_xwt2)
cla(app.ax_xwt3)
[form_idxs,~] = listdlg('PromptString',{'Please select fileformat ',...
''},...
'SelectionMode'... |
c9a04b0b0e16f1674e7aadf04338977d4709acdbe5a0506641f4875950d8fb1c | MATLAB | 7,418 | 288 | %George Roberts - 28/07/16
%Beamforming reconstruction of source power
addpath('bfunc');
addpath('sfunc');
addpath('vfunc');
%load data, initialise grid
dlocx = -0.03;
dlocy = 0.04;
dlocz = 0.07;
n_theta = 180;
rtmode = 2;
% while (rtmode > 3 || rtmode < 1)
% rtmode = input('Enter 1 to use radial components,... |
2e5c89ef52363d1d2d882b3657863cd1afce7c26db7b27aed520790d7b20bb55 | MATLAB | 7,424 | 130 | clear;
close all;
clc;
addpath 'G:\Sameni\Documents\Papers\Journal 40 (Spline ECG Filtering)\CODES'
% % % dbstop if warning
type = 'Arrhythmia';
switch(type)
case 'Normal'
pth = 'J:\ECGData\Normal';
fs = 128;
segstart_list = 0 : 60 : 30*60; % segstart_list = 0 : 600 : 12*3600;
dif... |
e4cc36cebbc49438b963f0c193e74685b7759c99d2efc437a300620c6227682f | MATLAB | 7,428 | 132 | %PegTouch.m %PegTouch analysis
%1AFInfoidate, mouseID, sessionNo,training condition, Num.Turns,TotalTouchTime, TotalWaterOn, Num.Stops, 1-10, 11-20, 21-30, 31-40,,,)
%2B:Start time array
%3C:Stop time array
%4D:TurnTime, cumulative
%5E:OneTurnTime
%6F:cumulativeTouchTime array; fall down
%7G:WaterOnTime arra... |
ff78ee7ae3947f4a04599fde8c42a5b5b4d9e0b263e7ebe70c26a4495b6d7774 | MATLAB | 7,432 | 203 | function FourierfunctionRLPeg20190925
%
% Ú×à¾ð±±ÉLq
global ACresult ACresultW CCresultDrinkOn SpikeArray RpegTouchallWon LpegTouchallWon TurnMarkerTime RmedianPTTM RpegMedian LmedianPTTM LpegMedian render...
RpNum LpNum OneTurnTime CCresultSpike locsP1time locsP2time locsP1time2 locsP2time2 fname... |
d049aace4db95659097885c597bfcf62a1e3a748ba880e3a76a6e44c75d83790 | MATLAB | 7,436 | 375 | function [coherogram,phase,t,f] = bz_MTCoherogram(lfp1,lfp2,varargin)
%MTCoherogram - Compute LFP coherogram by multi-taper estimation.
%
% USAGE
%
% [coherogram,phase,t,f] = MTCoherogram(lfp1,lfp2,<options>)
%
% lfp1,lfp2 wide-band LFPs (one channel each).
% <options> op... |
05f2a632b4f74304d984f75d80925eb48a7403305c8e8a647dcbbf7d191db20e | MATLAB | 7,452 | 263 | %% plot removal time dependent
[cols,alpha] = chooseColors;
figure('Position',[100 100 300 300])
hold on
% set lims and labels
xlim([0 31])
set(gca,'XTick',[0:5:30])
set(gca,'XTickLabel',-1:5)
xlabel('Time (s)')
ylabel('Accuracy (%)')
%indicate tone start and action start
plot([5 5],[40 90],'k','HandleVisibility','o... |
2f84969a2ff50fe9ef9db8655be2a8da38b87a94e966f982fd25dd02da5542c2 | MATLAB | 7,453 | 191 | function DataAugmFor3D(DataPath,SavePath,SegX,SegZ)
addpath(genpath('./XxUtils'));
if nargin < 4, SegZ = 13; end
if nargin < 3, SegX = 64; end
if nargin < 2, SavePath = '../your_augmented_datasets/';end
% ------------------------------------------------------------------------
% generate 3D dataset for ZS-DeconvNet
... |
d29ea5ceef696f7f176ec03fcd388e1380cdcca55fa610f8b5c19b631fbc2229 | MATLAB | 7,453 | 229 | % Copyright 2024 Eelke Spaak, Donders Institute.
% See https://github.com/Spaak/rift-phase-and-visibility for readme/license.
% Belongs with:
% Spaak, E., Bouwkamp, F. G., & de Lange, F. P. (2024). Perceptual foundation and extension
% to phase tagging for rapid invisible frequency tagging (RIFT). Imaging Neuroscience,... |
7903c913336c6ff8d8309ff66fe7d0ad74f0baa757b8318401994eeb7017ac96 | MATLAB | 7,454 | 261 | close all;
clear;
clc;
% parameters
subject1 = 'Dog_3';
subject2 = 'Dog_3';
number1 = 6;
number2 = 6;
path1 = ['J:\Seizure\' subject1 '\'];
path2 = ['J:\Seizure\' subject2 '\'];
mode1 = 'interictal';%'preictal';
mode2 = 'preictal';%'interictal';
epochlen = 10; % epoch length in seconds
epochoverlap = 7; % overlap betw... |
e926e79bce6e12421565622072caecd5404c722f8f8fc75ed2c69e2fcae366ae | MATLAB | 7,458 | 210 | function exportnetwork(filename, labels, conn, directed, varargin)
%% Export network data to a file in GEXF format.
% Export a network to a GEXF (XML-like) file that can be loaded by network
% visualization software, Gephi in particular.
%
% export_network(filename, labels, conn, directed,...)
%
% Input:
% filename: ... |
1092245d41b220e0d83d2bac972e89fa48f632eab0e53410099e0e9b09e6c629 | MATLAB | 7,466 | 191 | function [handle,pltchans,epos,Zi] = topoplotIndie(Values,chanlocs,varargin)
%% Set defaults
headrad = 0.5; % actual head radius - Don't change this!
GRID_SCALE = 67; % plot map on a 67X67 grid
CIRCGRID = 201; % number of angles to use in drawing circles
HEADCOLOR = [0 0 0]; % default head ... |
24eb7ce6622dae97b02eb6452cf804937c258ba0522e4c17cfd352d949637ca1 | MATLAB | 7,467 | 197 | %% GetAmplitudeRatio(MouseName, seDir)
% Amplitude ratios from spike rate
load('E:\seFilePaths_all');
tCorrectTrialRatio_summary =[];
for m = 1:size(seFilePaths_all,1)
tic
MouseName = seFilePaths_all.MouseName{m};
seFilePaths = seFilePaths_all.seFilePaths{m};
for i = 1: length(seFilePaths)
... |
46ae067230a9270686e760b429438ddbe432e303dd5e24667148842e44e78afa | MATLAB | 7,467 | 220 | function varargout=xwt(x,y,varargin)
%% Cross wavelet transform
% Creates a figure of cross wavelet power in units of
% normalized variance.
%
% USAGE: [Wxy,period,scale,coi,sig95]=xwt(x,y,[,settings])
%
% x & y: two time series
% Wxy: the cross wavelet transform of x against y
% period: a vector of "Fourier" periods a... |
7c0fe9978cf219101e06263ca0f89a8a1c776994069563a2a51dbb8f6fdbb677 | MATLAB | 7,468 | 211 |
%{
----------------------------------------------------------------------------
Determine the time window for task relevant neurons
%Start of task
%Sound on
%Sound off
%Before choice
%After choice (0sec)
%After choice (1sec)
%After choice (2sec)
%p = 0.001
%Each epoch, predict the prior, sensory and choice... |
967af73dac17529f7703fdcd71a09f21ea3e6687227fdb242bc9c38e0784fe7d | MATLAB | 7,477 | 244 | function results = stepwiseRegr(vett,nomiREG,avg_auc,t_onset,DataName1)
% [fid msg]=fopen('REG_TOT2.txt', 'r');
% if(fid>0)
% [vett cont]=fscanf(fid,'%f',[5 450]);
% disp([num2str(cont) ' valori letti...']);
% vett=vett';
% fclose(fid);
% else
% disp(msg);
% end
%
% [fid1 msg1]=fopen('regressori2.txt', 'r');
% if(fi... |
fa0e79b1b547e54aefe770cfe9d13b81fca409866b95e5fa96d4b9a7bfdbc243 | MATLAB | 7,479 | 230 | % Function that Finds a feature subset equal or best than all features
% to classify the conditon given
% Input
% Y: Labels: conditions
% X: Dataset
% NameFeatures: Feature Names
% EXPIDs: Experiment IDs
% Output
function OKFeatures = Best_Subset_Feature(Y,X,NameFeatures,EXPI... |
0f4ce8ba6cfda766e3373cff75af987708a64f47432591abb849ed09aaaadaf7 | MATLAB | 7,490 | 168 | function update_spectral_axis(app,static)
%UNTITLED Summary of this function goes here
% Detailed explanation goes here
int_idx = find(strcmp(app.popup_int_spect.Value,app.popup_int_spect.Items));
if static
labels = {['DS = ' num2str(app.edt_ds1.Value)];['DS = ' num2str(app.edt_ds2.Value)]};
channel_idx ... |
3330c61c385f9b9577e4049292a6084be8f0c1bc867a21365a9c9f2851821786 | MATLAB | 7,492 | 213 |
%{
----------------------------------------------------------------------------
Determine the time window for task relevant neurons
%Start of task
%Sound on
%Sound off
%Before choice
%After choice (0sec)
%After choice (1sec)
%After choice (2sec)
%p = 0.001
%Each epoch, predict the prior, sensory and choice... |
6d9a9536cef1ce716e8da0946feff1a048dc9822b6c3a8a6f89787e17c4c9b1c | MATLAB | 7,502 | 218 | % Function to anlize Driver Function:
% Check if first samples are the biggest ones (mainly due to miss
% detrending, fast bleaching or decay of fluorescence
% Input
% D: Original Set of Row Vector of Driver Signals
% FR: Response Functions
% XDupdate: Detrendend Signals
% Xest: ... |
0e00d8d62e3198494d3942da8e960d533f63d82a7013f88d11f5161a2ae15775 | MATLAB | 7,503 | 231 | function [anoise,tnoise,QC] = spmup_rcompcor(fmridata,brainmask,whitematter,csf)
% This function compute the 'compcor' regressors of Behzadi et al. 2007
% <http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2214855/>
% One difference from the original paper is that we use more robusts
% estimates for ROI selection based on ... |
8a7ac16678e3266011e7af75c9b1ea7eb128b0eee2f0c9cdfed08a32961c8033 | MATLAB | 7,510 | 276 | function [img handle] = imab(data, clims, bSep, noCols)
% function [img handle] = imab(data, clims, bSep, noCols)
%
% Just show the 2D, 3D or 4D data as quickly as possible
%
% Concatenates the slice dimension from left to right, and the time
% dimension from top to bottom.
%
% When Mosaiced, lowest slice is in bottom... |
317d45567f950d9d7c58026446ee73245d67b7f73cd6ec4511ed08a28b84bf47 | MATLAB | 7,524 | 163 | %change lines 40 -41 to decide which odor period to train and test on.
%201-280 = ON period, 281-360 = OFF period
clear all;
tic
clc;
close all;
fcount = 1;
od=xlsread('Odor_details.xlsx','Sheet3','G25:G46'); %odor_data
% od=xlsread('Odor_details.xlsx','Sheet3','C48:C69'); %odor_data
%od : mmHg, aliphatic?, #... |
cebeed54557b7985e1451a1d133757aec8f27a52dc3ded5a7e1f0c53fdd9706b | MATLAB | 7,530 | 213 | function plot_and_save_before_and_after_psth(all_psth, all_cells, name)
% plot and save psth of before after input all psth - 7 ints
% plot and save ir of before and after
%calculate and plot pvalue of mean response for each intensitiey
%all_psth(7*2 cell with all psth for all intensiteis
%
mkdir(name)
cd(name)
save('... |
7c2f4900aedb20c94364d4311e0b1d3f88f4521b6b96e748ae57709285f56b9c | MATLAB | 7,533 | 220 | clear all
close all
COMMONPLOTS=1;
ALLPLOTS=1;
sigma=0.5;
Veq=-76.72;
Vth=-39.51;
Vr=-41.70;
tau=11.85;
Vsp=-20;
R=118.5;
C=0.098;
tau_Ref=1;
P=10;
taus=20;
epsilon=0.05;
T=20000;
rate=10;
dt=0.1;
probaSpike=rate*(1e-3)*dt;
probaSpikeext=0.1*(1e-3)*dt;
wmax=2;
wmin=0;
t_vect=0:dt:T;
ntimes=length(t_vect);
n_Re... |
dd96981ef1638cbd1b758e951743ccdbfa02b1be75e457260594e95bfde1db37 | MATLAB | 7,536 | 132 | %1AFInfoidate, mouseID, sessionNo,training condition, Num.Turns,TotalTouchTime, TotalWaterOn, Num.Stops, 1-10, 11-20, 21-30, 31-40,,,)
%2B:Start time array
%3C:Stop time array
%4D:TurnTime, cumulative
%5E:OneTurnTime
%6F:cumulativeTouchTime array; fall down
%7G:WaterOnTime array
%8H:WaterOffTime array
%9I:Sto... |
0c60706902e3520922c25f9cf133fecb94055eba47db9f7aa91ca6565be0efd3 | MATLAB | 7,545 | 166 | % this script calculates the variance of FWF and T1w in
% NAWM of MS patients and check its correlation with significant behavioral
% scores and clinical parameters
clearvars
close all
addpath(genpath('/storage/stella/MATLAB_toolboxes/'));
addpath('/storage/stella/Analysis/matlab_scripts/');
cd('/storage/stella/Analy... |
2e53db824e05faf0c95572158918248ddebae8fc3e440b2e0bd62231b086c93c | MATLAB | 7,560 | 169 | function hFigPreview = doPlotFigPreview(hFigPreview, figData, fKeepView, hCfg)
%DOPLOTFIGPREVIEW
hWait = jrclust.utils.qMsgBox('Plotting...', 0, 1);
nSites = size(figData.tracesFilt, 2);
XDataSamp = figData.windowBounds(1):figData.windowBounds(2);
XData = XDataSamp / hCfg.sampleRate;
tlimSecs ... |
23233f2e3954781c0f49c79209d98fa55fbe946d55d96ac3a16715e95807eb96 | MATLAB | 7,566 | 240 | function wavelet_report(app)
%WAVELET_REPORT Summary of this function goes here
% Detailed explanation goes here
cla(app.ax_wavelet_sig1)
cla(app.ax_wavelet_sig2)
cla(app.ax_xwt1)
cla(app.ax_xwt2)
cla(app.ax_xwt3)
[form_idxs,~] = listdlg('PromptString',{'Please select fileformat ',...
''},...
'SelectionMode'... |
89b8d545b1a95740c40d70862c3bde05f440eec0ec51e099d8661832bc31fb2f | MATLAB | 7,566 | 184 |
function [P_O_model ,alpha_out , beta_out , alpha_T_out , b_c_ot_nc_out , P_observ_cond_to_state_out , P_observ_cond_to_state_comp_out]...
= forward_backward_chmm(pi_0_chmm, transition_matrices_chmm, chmm_gmm_para, Y_in)
%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
% CHMM forward-backward
%%%%%%... |
7566b888e8b05db7127de12c41c25e2241acd5fb9183c98666b5d5720131817c | MATLAB | 7,568 | 184 | % Script to read in and plot exported OptiTrack data
% Also adds in triggers based on velocity to look for movement related
% artefact.
% Before running this script, please make sure all your markers are
% labelled and all your rigid bodies are resolved in Motive. Then export
% trackiong data as a .csv file whic... |
3dbc0a9d5e6fc96f39a27deed31b649152fc2e5701fe0d90602c1ca81a74884a | MATLAB | 7,570 | 183 | function update_annotate_axis(app)
int_idx = find(strcmp(app.popup_int_annotate.Value,app.popup_int_annotate.Items));
int_name = app.popup_int_annotate.Value;
if int_idx == 1
borders = [nan nan];
else
tmp =find(vertcat(app.burst_ints.type) == 1);
borders = app.burst_ints(tmp(int_idx-1)).borders;
end
c... |
c05af3ba31c66de5d86c6a34936cf2307a41ae21117228073838788455d10e70 | MATLAB | 7,574 | 194 |
%{
----------------------------------------------------------------------------
Determine the time window for task relevant neurons
%Start of task
%Sound on
%Sound off
%Before choice
%After choice (0sec)
%After choice (1sec)
%After choice (2sec)
%p = 0.001
%Each epoch, predict the prior, sensory and choice... |
0c07b147bc7f525e56b624eacf726bad4287fe6af8415dcf780dcfd01c92fcf3 | MATLAB | 7,581 | 193 | %%Prequest
%model spike and model state date generated from 'Network_modeling.ipynb'
% This code can only be ran section by section
% for runing one of section, mute the rest of others
%% 1. single neuron simulation
%{
T_I_ex = readtable('E:\Wang_plots\Network modeling\19n09000.xlsx','Sheet',1);
T_v = readtable(... |
5a951ed0adfffd0620c164128daeff6f5d13158458d98e6880c87e070e4a04e5 | MATLAB | 7,581 | 87 | %%% load data from UKB_GxE.m
%% %%%%%%%%%%%%%%%%%
%% cross-validation of interactions
%% %%%%%%%%%%%%%%%%
clear SNP_Cardio_int_P SNP_Cardio_int_T SNP_Cardio_int_SE SNP_P
SNP_Cardio_int_P=zeros(360, 22); SNP_Cardio_int_P(SNP_Cardio_int_P==0)=NaN;
SNP_Dep_int_P=zeros(360, 22); SNP_Dep_int_P(SNP_Dep_int_P==0)=NaN;
%%%% s... |
caa7af8e642ddca807ad7d21d4364166685e53b10aff5cd30318130ecb10ef84 | MATLAB | 7,581 | 194 |
%{
----------------------------------------------------------------------------
Determine the time window for task relevant neurons
%Start of task
%Sound on
%Sound off
%Before choice
%After choice (0sec)
%After choice (1sec)
%After choice (2sec)
%p = 0.001
%Each epoch, predict the prior, sensory and choice... |
1a00740cb5b36394c4b96f1fa6e4a942a2dd9320860954b9426dfa5cc02cc340 | MATLAB | 7,585 | 150 | function dispFeatures = getFigProjFeatures(hClust, sitesToShow, selected)
%GETFIGPROJFEATURES Get features to show in feature projection view
% input: sitesToShow, vector of site indices
% input: selected, vector of primary (and optionally secondary)
% selected clusters
% output: d... |
461a09de8fdd4cb7c9da025d642a1ba4bf1091c18d9cf6ec19e10115afffb4a3 | MATLAB | 7,587 | 182 | %% percent of intensity encoding and reponsive cells
%% early responsvie
cd('I:\My Drive\ELYASHIV\PFC_paper_results_after_revision\eopn3\all_ints_data\is responsive and IE control_vs_eopn3_vs_c57')
load("all_ints_with_tags.mat")
%%
G1 = grpstats(T, "tag","mean",DataVars=["Is_reponsive","Is_reponsive_and_IR"]);
wr... |
4a473e091c18695e416a42e2e5e29d996a14f8bdc0b348c8fdad15a79640fadd | MATLAB | 7,604 | 201 | function [bad_comps] = plot_ICA_comps(comp150,ch_table,lay,bad_comps)
%% Lukas Rier July 2022
comps_n_page = 7;
currpage = 1;
n_comps = size(comp150.topo,2);
comps_table = cell(n_comps,3);
table_color = zeros(n_comps,3);
for comp_i = 1:n_comps
comps_table{comp_i,1} = comp_i;
comps_table{comp_i,2} = 'Good';
... |
958c48b466fdb94222100cb18b8b7b036aa3758991dd349b6e5acb4690eb1b5e | MATLAB | 7,605 | 242 | close all; clear mex;
funtype = 'gpu';
%funtype = 'cpu';
%funtype = 'matlab';
kCNNFolder = '..';
addpath(kCNNFolder);
addpath(fullfile(kCNNFolder, 'matlab'));
if (strcmp(funtype, 'gpu') || strcmp(funtype, 'cpu'))
kMexFolder = fullfile(kCNNFolder, 'c++', 'build');
kBuildFolder = fullfile(kMexFolder, funtyp... |
c3da8ab72758b712300f0ffd9d3578f69f04fc652213b82622abaefe89460b37 | MATLAB | 7,611 | 224 | clearvars
close all
addpath(genpath('/storage/stella/MATLAB_toolboxes/')); % insert the path to NIFTI_studio toolbox
%% simple generating three tissue masks (CSF, GM, WM) integrating info from FIRST and FAST (using MNI priors for registration)
folder = pwd;
slice = 86; % just to visualize maps
brain_all = load_unto... |
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