sha256 stringlengths 64 64 | language stringclasses 28
values | size int32 1 491k | lines int32 1 23.2k | content stringlengths 1 200k |
|---|---|---|---|---|
ec33d6c3fcb07befdfe9cea0d75e000e4e81b14ad91c7220d1384d49298c505a | MATLAB | 22,887 | 624 | function [idx, C, sumD, D] = weightedkmeans(X, k, varargin)
% similar to MATLAB's kmeans function, but takes weights
if nargin < 2
error('stats:kmeans:TooFewInputs','At least two input arguments required.');
end
if any(isnan(X(:)))
warning('stats:kmeans:MissingDataRemoved','Removing rows of X with missing dat... |
868c64ee02714a8e2b8b68417dc177073380a25a866bef1510d773c3d08f93b4 | MATLAB | 22,889 | 375 | %% Data Decoder
clear
clc
load Dataset
list=fieldnames(Dataset);
[indx,tf] = listdlg('PromptString',{'Select a Figure Panel:','',''},'ListString',list,'SelectionMode','single');
filename=list{indx, 1};
Data=Dataset.(filename).Data;
formula=Dataset.(filename).Formula;
distribution=Dataset.(filename).Distributio... |
68fe44461ae9c9d4ee16634c3447ecc756ce92ef4a48acf78d9d43f60fa18e51 | MATLAB | 22,923 | 532 | function runMMIVA_allHCSZ
% % Instructions to run this script:
% % Set current folder to be the MISA folder, e.g.:
% cd . % cd('~/MISA')
% % Add the folder containing this file to the path, e.g.:
% addpath('./scripts/tests')
% % Clear all and RUN:
% close all; clear all; clc
% % run this script
comps=30;
P=0;
addpath('... |
fa5a4deb3df24cb2818ce5d1ae99ee838088f1e5132728c08f106a1e337f439a | MATLAB | 22,936 | 657 | function readsett = inifile(fileName,operation,keys,style)
%readsett = INIFILE(fileName,operation,keys,style)
% Creates, reads, or writes data from/to ini (ascii) file.
%
% - fileName: ini file name
% - operation: can be one of the following:
% 'new' (rewrites an existing or creates... |
7a4c8bbb1bcb62d1adcb419a8770eeaa55b28d81dedff2f038964aa0b1678646 | MATLAB | 22,944 | 534 | % pop_importepoch_lan() - Export epoch and/or epoch event information to the event
% structure array of an EEG dataset. If the dataset is
% the only input, a window pops up to ask for the relevant
% parameter values.
% Usage:
% >> EEGOUT = pop_importepoch... |
5fb5bd3cf9aa73e3f53e46d564517be760d58bf061b9fdca2729526319ac51c0 | MATLAB | 22,949 | 313 | function [hdr] = read_ns_hdr(filename)
% READ_NS_HDR read the header from a NeuroScan 3.x or 4.x AVG/EEG/CNT File
%
% [hdr] = read_ns_hdr(filename)
%
% The output data structure hdr has the fields:
% hdr.label - electrode labels
% hdr.nchan - number of channels
% hdr.npnt - number of samplepoi... |
a242a6258bf249e16754f25e6e8636b506151936d9b43da95b4bc835254e9789 | MATLAB | 23,005 | 638 | function [mvardata] = ft_mvaranalysis(cfg, data)
% FT_MVARANALYSIS performs multivariate autoregressive modeling on
% time series data over multiple trials.
%
% Use as
% [mvardata] = ft_mvaranalysis(cfg, data)
%
% The input data should be organised in a structure as obtained from
% the FT_PREPROCESSING function. The... |
c3454752123d190819328e93b4e5325b61e9e52c845a5d8f5eeabac192d899d5 | MATLAB | 23,005 | 638 | function [mvardata] = ft_mvaranalysis(cfg, data)
% FT_MVARANALYSIS performs multivariate autoregressive modeling on
% time series data over multiple trials.
%
% Use as
% [mvardata] = ft_mvaranalysis(cfg, data)
%
% The input data should be organised in a structure as obtained from
% the FT_PREPROCESSING function. The... |
f35733ade22be4c08c31b5be6327261b37596dd26b918667f13a3aa9a0b9e8cb | MATLAB | 23,007 | 663 | %--------------------------------------------------------------------------
%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
% CBIG_MFMem_rfMRI_estimation_main.m
%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
%
% This is the main execution script. The purpose of the skript is to use
% given functional connectivity matrix (FC) and emprical funct... |
3fe8b84a55355f2baf3834d7e442b9c3b3f9fb0bd915f3bf06f465caa4eb53bf | MATLAB | 23,036 | 442 | function [] = plot_ground_truth_across_sessions(folders,option,method)
total_number{1}(1:3) = 0;
total_number{2}(1:3) = 0;
for nfolder = 1:length(folders) % Get total number of replay events
for nshuffle = 1:2 % 1 is original and 2 is global remapped
session_total_number{nshuffle}(nfolder,1:3) = 0;
en... |
ccfd57791e633ef4865bb7d3e76ee165bf318695db60c92cb75d9571752b42ed | MATLAB | 23,051 | 318 | function [hdr] = read_ns_hdr(filename)
% READ_NS_HDR read the header from a NeuroScan 3.x or 4.x AVG/EEG/CNT File
%
% [hdr] = read_ns_hdr(filename)
%
% The output data structure hdr has the fields:
% hdr.label - electrode labels
% hdr.nchan - number of channels
% hdr.npnt - number of samplepoi... |
e1fe00d761abc88b5cf9cf162db34169e8de15a184092d8ecbbb7d2025cd6da8 | MATLAB | 23,052 | 663 | %--------------------------------------------------------------------------
%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
% CBIG_MFMem_rfMRI_estimation_main.m
%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
%
% This is the main execution script. The purpose of the skript is to use
% given functional connectivity matrix (FC) and emprical funct... |
11f557894bd1e60e5948bd21a4a30c861ef2023a781f55cfc62b3e5285339a06 | MATLAB | 23,060 | 629 | function [chansel, trlsel, cfg] = rejectvisual_summary(cfg, data)
% SUBFUNCTION for ft_rejectvisual
% determine the initial selection of trials
ntrl = length(data.trial);
if isequal(cfg.trials, 'all') % support specification like 'all'
cfg.trials = 1:ntrl;
end
trlsel = false(1, ntrl);
trlsel(cfg.trials) = true;
% ... |
1b6696c4f5ce90398c140e28b8a9e5534644612deefdd689f92d7455b2253462 | MATLAB | 23,121 | 666 | function CBIG_MFMem_rfMRI_estimation_main_ut(N_core,EstimationMaxStep,output_dir)
%--------------------------------------------------------------------------
%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
% CBIG_MFMem_rfMRI_estimation_main.m
%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
%
% This is the main execution script. The purpose of ... |
bb625ba2164b507fad815db946d52b6a747ecda59595921570bf2d93c2e813ee | MATLAB | 23,152 | 605 | classdef InfoTimelineController < handle
% A sub-controller to manage the two timeline axes and their contents.
% The things shown in here roughly reflect the model state represented in
% labeler.infoTimelineModel, an InfoTimelineModel object. But the
% correspondence is not exact. All changes to graphics han... |
91137f6850bcbb235c0fcd780118bb5b8a5cab23cadf50178ccba1351387f802 | MATLAB | 23,204 | 632 | function read_Intan_RHD2000_file
% read_Intan_RHD2000_file
%
% Version 2.01, 11 October 2017
%
% Reads Intan Technologies RHD2000 data file generated by evaluation board
% GUI or Intan Recording Controller. Data are parsed and placed into
% variables that appear in the base MATLAB workspace. Therefore, it is
% recom... |
8a80364344e1151d5b3c4241bf9ce0c465f7315ef176621f6f3787abae263a07 | MATLAB | 23,271 | 674 | %--------------------------------------------------------------------------
%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
% CBIG_MFMem_rfMRI_estimation_main.m
%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
%
% This is the main execution script. The purpose of the skript is to use
% given functional connectivity matrix (FC) and emprical funct... |
1693534a530c78386f823cbea900d0f5bc9a77b7fcf3eb2c447653f3bfc1deea | MATLAB | 23,279 | 540 | function runMMIVA_allHCSZ_w_init
% % Instructions to run this script:
% % Set current folder to be the MISA folder, e.g.:
% cd . % cd('~/MISA')
% % Add the folder containing this file to the path, e.g.:
% addpath('./scripts/tests')
% % Clear all and RUN:
% close all; clear all; clc
% % run this script
comps=20;
P=0;
ad... |
818747fc8156f1689b65b8c1a0c96498d2a541f96eb68b400f3e07ba43f6a38d | MATLAB | 23,284 | 544 | function [data] = ft_freqsimulation(cfg)
% FT_FREQSIMULATION makes simulated data in FieldTrip format. The data is
% built up from fifferent frequencies and can contain a signal in which the
% different frequencies interact (i.e. cross-frequency coherent). Different
% methods are possible to make data with special pro... |
ed2662703d420f5644b6180539e042e24e97a36b1f459b4554964b2df55968d1 | MATLAB | 23,288 | 632 | function TSplot(varargin)
% Graphics helper function for TSapplystat. MUST BE CALLED BY TSAPPLYSTAT!!
% Uses Matlab's plot function. Makes multiple plots (panels) per figure
% and labels them with Subject, or Subject & Session, or Subject, Session &
% Trial and/or Phase. Makes both line and scatter plots and allows mor... |
2c51af69205b6d217bff143942ff5e140923dec8593cd8c13555162dcbe52415 | MATLAB | 23,297 | 737 | %% this code block loads the network file from pytorch and transforms them for use with DAQ
% it then loads mnist and forward propagates with this network for comparison purposes
netfile = 'mnist_customsingleslm_230909211908.h5';
info = h5info(netfile);
net0 = abs(h5read(netfile,['/' info.Datasets(1).Name]));
ne... |
9d7de48da0a1892a8599737cf26c95058966bc45069d39a171f3ddef6be0dc17 | MATLAB | 23,303 | 520 | function [channel] = ft_channelselection(desired, datachannel, senstype)
% FT_CHANNELSELECTION makes a selection of EEG and/or MEG channel labels.
% This function translates the user-specified list of channels into channel
% labels as they occur in the data. This channel selection procedure can be
% used throughout Fi... |
4d658c41a6e14bc4864e35f697478a8db55453d29ef510fe83c132f7a7d29e58 | MATLAB | 23,307 | 529 | function [Pout,out] = boney_segment(job)
%boney_segment. Extract bone measures based on SPM segmentation.
% ... DETAILED DESCRIPTION ...
%
% Pout = boney_segment(job);
%
% job .. SPM job structure
% .files .. SPM m-files
% .opts .. structure of input values
% .pmethod .. preprocessing method:... |
468bc72bbd7c9f713e764e6ab5712154be7ef66a09b76f9dc1e16f4552bfc932 | MATLAB | 23,349 | 544 | % RemoveArtifacts.m
% Sarah West
% 3/14/22
% Function that helps remove artifacts from images (intended for IC
% artifacts). Is the first function I'm writing that's called with
% RemoveArtifacts.m
% Needs to use:
% parameters.sources
% parameters.indices_of_mask
% parameters.reference_image
function [parameters] = ... |
5d15b6a4ba053c456ae70e5df9ac16a8577c21293c6794bdfeb36afb31278547 | MATLAB | 23,356 | 568 | function [cfg] = ft_singleplotTFR(cfg, data)
% FT_SINGLEPLOTTFR plots the time-frequency representation of power of a
% single channel or the average over multiple channels.
%
% Use as
% ft_singleplotTFR(cfg,data)
%
% The input freq structure should be a a time-frequency representation of
% power or coherence that w... |
0b47577654a3e26283b00b5750e3c032dee4105de21230d3ed5d69e8e857174f | MATLAB | 23,362 | 755 | % clear
% clc
% f = gcf;
% exportgraphics(f,'Fig1_Original.png','Resolution',600)
MotionData = load('MotionData.mat');
MusculoskeletalData = load('MusculoskeletalData.mat');
MuscleCluster = load('MuscleCluster.mat');
MuscleCluster = MuscleCluster.MuscleCluster;
C1 = MuscleCluster{1};
C2 = MuscleCluster{2};
C3 = Musc... |
d4189b3fc2aa3071f14836e9ce564a043f5ad8f18ad517e95598017ebf81bd33 | MATLAB | 23,373 | 638 | function varargout = gui_place_sources_detectors(varargin)
% GUI_PLACE_SOURCES_DETECTORS M-file for gui_place_sources_detectors.fig
% GUI_PLACE_SOURCES_DETECTORS, by itself, creates a new GUI_PLACE_SOURCES_DETECTORS or raises the existing
% singleton*.
%
% H = GUI_PLACE_SOURCES_DETECTORS returns the hand... |
5e67227c1b9fab482aa8798a354cebca1f848282acd984aca87f7825387104ff | MATLAB | 23,399 | 591 | %loadcnt() - Load a Neuroscan continuous signal file.
%
% Usage:
% >> cnt = loadcnt(file, varargin)
%
% Inputs:
% filename - name of the file with extension
%
% Optional inputs:
% 't1' - start at time t1, default 0
% 'sample1' - start at sample1, default 0, overrides t1
% 'lddur' - duration of s... |
776b195674dc6311b7d448b7c9ca88e3cfe9744e280a1129ca0551786a2fd757 | MATLAB | 23,445 | 590 | function [hfp,out] = VBA_ReDisplay(posterior,out,newFig,fromPause)
% re-creates the graphical output of the VBA inversion + diagnostics
% function [hfp] = VBA_ReDisplay(posterior,out,newFig)
% VBA_ReDisplay first looks for a figure with a tag 'VBNLSS', i.e. a figure
% that was already opened to review a model inversion... |
da4a835b1f9bc915c2dd03b6a0bfbbf71e5859e2db1ce34062cabb6ea509174c | MATLAB | 23,476 | 522 | function [channel] = ft_channelselection(desired, datachannel, senstype)
% FT_CHANNELSELECTION makes a selection of EEG and/or MEG channel labels.
% This function translates the user-specified list of channels into channel
% labels as they occur in the data. This channel selection procedure can be
% used throughout Fi... |
bfdd359e66730c42ef0860ac2a3a367b81523eb958ded4796c749edd81064600 | MATLAB | 23,492 | 746 | classdef VideoTest
% We have found movie-reading of some JRC vids to be fragile on Linux,
% with results varying depending on i) order of frames read, ii) host
% machine, and iii) matlab version.
%
% This class encapsulates a test whereby frames are read from a movie a)
% sequentially, starting from the fi... |
d125a866b5321a6620cccb59e7f76a80929e651c556090162aef2a26bc53278b | MATLAB | 23,497 | 720 | function varargout = NavPrefsNew(varargin)
% NAVPREFS_EXPORT MATLAB code for NavPrefsNew.fig
% NAVPREFS_EXPORT, by itself, creates a new NAVPREFS_EXPORT or raises the existing
% singleton*.
%
% H = NAVPREFS_EXPORT returns the handle to a new NAVPREFS_EXPORT or the handle to
% the existing singleton*... |
54943d79242118953fe455746773231c3668b8fabbee68e9b3c0a22670aa7537 | MATLAB | 23,502 | 541 | function runMMIVA_allHCSZ
% % Instructions to run this script:
% % Set current folder to be the MISA folder, e.g.:
% cd . % cd('~/MISA')
% % Add the folder containing this file to the path, e.g.:
% addpath('./scripts/tests')
% % Clear all and RUN:
% close all; clear all; clc
% % run this script
comps=30;
P=0;
addpath('... |
045c1685fff5627409285a34b9dc2e00231be0dcff027ce8952160fcfcce5835 | MATLAB | 23,528 | 447 | %%%%%%%%%%%%%%%%%%%%%%%%%%% Ö÷º¯Êý %%%%%%%%%%%%%%%%%%%%%%%%%%
function varargout = XomicsEnrich(varargin)
% TEST1 MATLAB code for XomicsEnrich.fig
% TEST1, by itself, creates a new TEST1 or raises the existing
% singleton*.
%
% H = TEST1 returns the handle to a new TEST1 or the handle to
% the exist... |
9d5f3a7fb3dfd871b53227d7c8be9d5c8f463285da7d557c8ffa2a71e1b66a21 | MATLAB | 23,595 | 611 | %% Regression using parametric discriminative models in pmtk3
%
% Many of the basic concepts of supervised learning,
% and their pmtk3 implementation,
% can be explained using linear regression as a model.
% We can handle non-linear relationships
% using basis function expansion, as we explain below.
% We will d... |
f68e6614a43ee314086415d41b5dbb0b31fd0ceae12f6f3730c17562b4d90997 | MATLAB | 23,646 | 708 | %%
I = IMain20180503;
I = Igt;
szmain = cellfun(@size,Igt,'uni',0);
szmain = cellfun(@(x,y)cat(2,x,y),szmain(:,1),szmain(:,2),'uni',0);
szmain = cat(1,szmain{:});
tfbigim = ismember(szmain(:,1),[1024 1024 1024 1024]);
%%
t = tMain20180503;
lblCatC = categorical(t.lblCat);
tlblCatC = sortedsummary(lblCatC)
%%
flyC = ... |
64517ae0c0219aea7991317a4e2fca3aabd34bdaeb2cd3a6fb0325e1e2054270 | MATLAB | 23,668 | 675 | function readsett = inifile(fileName,operation,keys,style)
%readsett = INIFILE(fileName,operation,keys,style)
% Creates, reads, or writes data from/to ini (ascii) file.
%
% - fileName: ini file name
% - operation: can be one of the following:
% 'new' (rewrites an existing or creates... |
bf891b08a89fcd0ce32d0a12b5ed6409ca9bc3ea520413a50a2df8db827a3485 | MATLAB | 23,701 | 647 | function [chansel, trlsel, cfg] = rejectvisual_summary(cfg, data)
% SUBFUNCTION for ft_rejectvisual
% % determine the initial selection of trials
%ntrl = length(data.trial);
% if isequal(cfg.trials, 'all') % support specification like 'all'
% cfg.trials = 1:ntrl;
% end
% trlsel = false(1, ntrl);
% trlsel(cfg.trials... |
8815a35455cb48de472a69f262ed79db1d181cbcac17e4c1cea5cdc435fff206 | MATLAB | 23,706 | 660 | function varargout = DPARSF_NuisanceSetting(varargin)
% DPARSF_NUISANCESETTING MATLAB code for DPARSF_NuisanceSetting.fig
% DPARSF_NUISANCESETTING, by itself, creates a new DPARSF_NUISANCESETTING or raises the existing
% singleton*.
%
% H = DPARSF_NUISANCESETTING returns the handle to a new DPARSF_NUISAN... |
f739fa949a74decf1bab8bdc5b8d3d90ca527c191b62f3fe70795b1e57245702 | MATLAB | 23,738 | 639 | classdef ShellCommand < apt.ShellToken
% apt.ShellCommand - Type-safe shell command composition with automatic path translation
%
% This class represents shell commands as structured lists of tokens rather than
% plain strings, enabling automatic translation of paths and arguments when
% commands need to exec... |
9a9d29a196e7063f20dce060186ed13b396bd91787aa7878eb6500ffd18727fb | MATLAB | 23,750 | 606 | classdef Stack < handle_light
%stackHolder Raw data and metadata, transform after ROI and axis selection
%---------------------------------------------------------------------
% license
%---------------------------------------------------------------------
% Copyright 2015 Idse Heemskerk an... |
72ad770da2110ce45496510bf3e7c5f61caedee1ce21836bf67feeb0504d1309 | MATLAB | 23,811 | 640 | classdef ColorsByName <handle
% AUTHORSHIP
% Primary Developer: Stephen Meehan <swmeehan@stanford.edu>
% Math Lead & Secondary Developer: Connor Meehan <connor.gw.meehan@gmail.com>
% Bioinformatics Lead: Wayne Moore <wmoore@stanford.edu>
% Provided by the Herzenberg Lab at Stanford University
% License:... |
b36c4291ccf0d018663acae44e1bc691471873d7c5185000d71f07806c6b2e00 | MATLAB | 23,819 | 370 | function [ImageArrayDemonReg_AllImages,demonDispFields]=Stream_Block_Demon_Reg(RunParallel,myPool,StackSaveName,ImageArrayDFTReg_AllImages,...
ReferenceImage_Padded_Masked_Filtered_Enhanced,...
AllBoutonsRegion_Orig_Padded,AllBoutonsRegion_Orig_Mask_Padded,BorderLine_Orig,Crop_Props,...
Imagi... |
f7a7a4a892fd3a731a99ebfe2fcdce28de408baba1d37cf2fd7f5a9085e1cdd4 | MATLAB | 23,878 | 554 | function runMMIVA_allHCSZ_w_init
% % Instructions to run this script:
% % Set current folder to be the MISA folder, e.g.:
% cd . % cd('~/MISA')
% % Add the folder containing this file to the path, e.g.:
% addpath('./scripts/tests')
% % Clear all and RUN:
% close all; clear all; clc
% % run this script
comps=20;
P=0;
ad... |
bec580c2d005356a3260fae36ce29dbbc1a5d3ad3df5ded4e1336b04f90bae55 | MATLAB | 23,912 | 603 | % AUTHORSHIP
% Primary Developer: Stephen Meehan <swmeehan@stanford.edu>
% Math Lead & Secondary Developer: Connor Meehan <connor.gw.meehan@gmail.com>
% Bioinformatics Lead: Wayne Moore <wmoore@stanford.edu>
% Provided by the Herzenberg Lab at Stanford University
% License: BSD 3 clause
%
classdef Radio... |
602a03106ed3aacc3b1c6319a00baff9272ed57793c3cc47ea42eeb77c730503 | MATLAB | 23,915 | 611 | % AUTHORSHIP
% Primary Developer: Stephen Meehan <swmeehan@stanford.edu>
% Math Lead & Secondary Developer: Connor Meehan <connor.gw.meehan@gmail.com>
% Bioinformatics Lead: Wayne Moore <wmoore@stanford.edu>
% Provided by the Herzenberg Lab at Stanford University
% License: BSD 3 clause
%
classdef SuhDa... |
aa4c39a4e1486651a038c16d58f98d0ef3e336d9553f942328d63e6e49e2cb0c | MATLAB | 23,954 | 498 | function [stat, cfg] = ft_statistics_montecarlo(cfg, dat, design, varargin)
% FT_STATISTICS_MONTECARLO performs a nonparametric statistical test by calculating
% Monte-Carlo estimates of the significance probabilities and/or critical values
% from the permutation distribution. This function should not be called
% dire... |
6304ebdc1643c5d182f21841e9bfa726474952345ab8f84265a39a0d91d5b987 | MATLAB | 23,982 | 621 | function [D,A] = meg_peakAnalysis(D4,nChOI,groupC,expt,user)
% finds max amp and max idx per target per condition per subject
% averages and plots
% April 2020
% D4 = data structure, fields = slice conditions
% D4.cue (trial x channels x session)
% groupC(iSession) structure
% groupC.channelsRanked
% groupC.... |
13a1febbf138ae7d6782c1279b16778550c50972dc6f88294ae37ca46fb70f7e | MATLAB | 23,987 | 498 | function [stat, cfg] = ft_statistics_montecarlo(cfg, dat, design, varargin)
% FT_STATISTICS_MONTECARLO performs a nonparametric statistical test by calculating
% Monte-Carlo estimates of the significance probabilities and/or critical values
% from the permutation distribution. This function should not be called
% dire... |
8435dc2780b6936c64f73fefea06f16766d8e6ef6ae783e4bff7f26e8b6b644c | MATLAB | 24,044 | 599 | function [lf] = ft_compute_leadfield(dippos, sens, headmodel, varargin)
% FT_COMPUTE_LEADFIELD computes a forward solution for a dipole in a a volume
% conductor model. The forward solution is expressed as the leadfield
% matrix (Nchan*3), where each column corresponds with the potential or field
% distributions on al... |
f94a4bdc841814db51ac460fac4f5b9c12b7199687b01d2eddc93d0a4825e39c | MATLAB | 24,048 | 536 | function [response, timing, quitProg] = showScanStimulus(display,...
stimulus, t0, timeFromT0)
% [response, timing, quitProg] = showStimulus(display,stimulus, ...
% [time0 = GetSecs], [timeFromT0 = true])
%
% Inputs
% display: vistaisp display structure
% stimulus: vistadisp stimulus struc... |
94b809f9ff4f6f82c259a52090d880be14bbea31d7741c8be0cb3f4aa3e355dc | MATLAB | 24,099 | 502 | function [sens] = ft_datatype_sens(sens, varargin)
% FT_DATATYPE_SENS describes the FieldTrip structure that represents an EEG, ECoG, or
% MEG sensor array. This structure is commonly called "elec" for EEG, "grad" for MEG,
% "opto" for NIRS, or general "sens" for either one.
%
% For all sensor types a distinction shou... |
89132fdf99ac75501ec9b89d965aecf29dd580e199ec339a00927ffb47f02fc2 | MATLAB | 24,155 | 503 | function [sens] = ft_datatype_sens(sens, varargin)
% FT_DATATYPE_SENS describes the FieldTrip structure that represents an EEG, ECoG, or
% MEG sensor array. This structure is commonly called "elec" for EEG, "grad" for MEG,
% "opto" for NIRS, or general "sens" for either one.
%
% For all sensor types a distinction shou... |
0034d553faa5398c3f0739eb06329354130ca1dbb62e001f7aff09b1fdeee5de | MATLAB | 24,171 | 654 | % Address the basic question, when x is the salient category, what
% percentage of units are tuned to x.
function SlidingTimeDPrimeSplitEffectors(config,varargin)
[varargin,DateName] = Utilities.ProcVarargin(varargin,'DateName',[]);
[varargin,Pmethod] = Utilities.ProcVarargin(varargin,'Pmethod','fdr');
[... |
8d90ef585eb6c12d9c9ad2347b3884317580c54dd909a8287cea430c3ac92485 | MATLAB | 24,221 | 655 | %% GAMMA: Correlation/covariance as a function of distance
% calculate centroids first
mkdir([DIRresultsRipple, '/corr/']);
corr_data = Low60GammaData(good_chan,(task_data(1,3)-500):(task_data(end,3)+500));
for z=1:num_groups
map_of_indexes = map_indexes_1s(:,:,z)';
% calculate centroids
[cols rows] =... |
7e191f60c6a4fba8abb2ac4ef6320c65b6ef90198e4715dfd735f3e51c040c94 | MATLAB | 24,222 | 608 | function varargout = h_groupControlGUI3(varargin)
% H_GROUPCONTROLGUI3 M-file for h_groupControlGUI3.fig
% H_GROUPCONTROLGUI3, by itself, creates a new H_GROUPCONTROLGUI3 or raises the existing
% singleton*.
%
% H = H_GROUPCONTROLGUI3 returns the handle to a new H_GROUPCONTROLGUI3 or the handle to
... |
2b58677359f8eb070369f7b1add2f1154c21affd9d88d403238a734518d3c978 | MATLAB | 24,226 | 612 | function astro_geometry
% 2023-06-16
% Takes in the excel and matlab data and spits out a 3D
% image
% The function loads the data set (if not found), find the radii
% corresponding to the position indices, forms the branch information by
% comparing the excel and matlab datas, and forms the 3D image. The
... |
32fbe7d237ed6d098e5b5f40f910af62f6345ec5dee52ac26c7ea6470eb142ed | MATLAB | 24,240 | 636 | function [amplifier_channels, notes, aux_input_channels, spike_triggers,...
board_dig_in_channels, supply_voltage_channels, frequency_parameters,board_adc_channels ]...
= read_Intan_RHD2000_file_snlab(data_path)
% read_Intan_RHD2000_file_bz
%
% Version 2.01, 11 October 2017
%
% Reads Intan Technologie... |
08418502434c0dcbafd550d11f00a0e65fbe0b5a90ea60599f0dc70cded946b2 | MATLAB | 24,263 | 599 | function [lf] = ft_compute_leadfield(dippos, sens, headmodel, varargin)
% FT_COMPUTE_LEADFIELD computes a forward solution for a dipole in a a volume
% conductor model. The forward solution is expressed as the leadfield
% matrix (Nchan*3), where each column corresponds with the potential or field
% distributions on al... |
2902f20ef819049863a8f46b877301b4a6951b17b704d45393d85fafe03c4ad2 | MATLAB | 24,287 | 823 | function [samples, stats, structArray] = matbugs(dataStruct, bugsModel, varargin)
% MATBUGS a Matlab interface for WinBugs, similar to R2WinBUGS
% [samples, stats] = matbugs(dataStruct, bugsModelFileName, ...)
%
% This generates a file called 'script.txt' in the directory where
% winbugs14.exe is kept (so you must hav... |
172225d335257f5852772159c7e3fa56b009c355ad4ee25756c7525986d565b3 | MATLAB | 24,333 | 655 | % Address the basic question, when x is the salient category, what
% percentage of units are tuned to x.
function SlidingTimeDPrimeSplitEffectorsStatic(config,varargin)
[varargin,DateName] = Utilities.ProcVarargin(varargin,'DateName',[]);
[varargin,Pmethod] = Utilities.ProcVarargin(varargin,'Pmethod','fdr... |
58ddf1a6a874475c0d1d5e800c83a868edef58733892ef19aa9f0a6e202567ee | MATLAB | 24,353 | 581 | function c = multiprod(a, b, idA, idB)
%MULTIPROD Multiplying 1-D or 2-D subarrays contained in two N-D arrays.
% C = MULTIPROD(A,B) is equivalent to C = MULTIPROD(A,B,[1 2],[1 2])
% C = MULTIPROD(A,B,[D1 D2]) is eq. to C = MULTIPROD(A,B,[D1 D2],[D1 D2])
% C = MULTIPROD(A,B,D1) is equival. to C = MULTIPROD(A,B,... |
4d82a1af94f439c70fbc4155ce555cc53fd37fede681013611c7d2d3cf8982a3 | MATLAB | 24,374 | 728 | function dimord = getdimord(data, field, varargin)
% GETDIMORD determine the dimensions and order of a data field in a FieldTrip
% structure.
%
% Use as
% dimord = getdimord(data, field)
%
% See also GETDIMSIZ, GETDATFIELD, FIXDIMORD
% Copyright (C) 2014-2019, Robert Oostenveld
%
% This file is part of FieldTrip, s... |
172a6f64cf7709a5b3b696f68b0877d5938dbf8f7f852e422a48262252b7e9b2 | MATLAB | 24,460 | 710 | function [SpikeLFPCoupling] = bz_GenSpikeLFPCoupling(spikes,LFP,varargin)
% SpikeLFPCoupling = GenSpikeLFPCoupling(spikes,LFP)
%
%INPUT
% spikes structure with fields (from bz_getSpikes)
% .times
% -or-
% {Ncells} cell array of spiketimes ... |
4578973374883c714f32d3f13f5006279c4538b4f8cb93e357c0cc28a08c7b3e | MATLAB | 24,499 | 675 | function json=savejson(rootname,obj,varargin)
%f
% json=savejson(rootname,obj,filename)
% or
% json=savejson(rootname,obj,opt)
% json=savejson(rootname,obj,'param1',value1,'param2',value2,...)
%
% convert a MATLAB object (cell, struct or array) into a JSON (JavaScript
% Object Notation) string
%
% author: Qianqian F... |
5e57f4e8a7dea18c91a41f862ccccb54f0d5d6c56b7c85f270e2f7d9ccdfbbef | MATLAB | 24,528 | 275 | %%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
%Server/Client Parameters (NOTE! this must match the server parameters)
[OS,dc,ClentCompName,MatlabVersion,MatlabVersionYear,ScreenSize]=WhereAmIRunning(1);
[ServerIP,Serve... |
552a839ef3571542b9d2d35fd943d8309be4d15cc1725e4ac1b9f1a71c4b0836 | MATLAB | 24,529 | 752 | function varargout = showufmf(varargin)
% showufmf
%
% Opens a GUI to show UFMF-compressed video
% Optional inputs:
%
% UFMFName: Name of input video.
%
%
% Edit the above text to modify the response to help showufmf
% Last Modified by GUIDE v2.5 18-Jul-2014 11:42:42
% Begin initialization code - DO NOT EDIT
gui_Si... |
21a6e2aecd333696d77cd25f98f848cd268698f72ee62ddbe2694eef1c8bc0f3 | MATLAB | 24,540 | 813 | clear
clc
% f = gcf;
% exportgraphics(f,'Fig1_Original.png','Resolution',600)
MotionData = load('MotionData.mat');
MusculoskeletalData = load('MusculoskeletalData.mat');
%% Motion Data
MotionData = MotionData.MotionData;
% Joint Angles
SHLa = MotionData.GenericCat.Angles.AngShou.Total*(pi/180);
ELBa = MotionData.Ge... |
0819e480ac45cf1445aff3511b5bdd567ea3f6916326bac16fba825e8c2b4805 | MATLAB | 24,580 | 500 | clear;
clc;
%%
do_save_fig= 1;
nSProws= 2;
nSPcols= 3;
sp_ax= get_axes(5, nSProws, nSPcols);
delay_ms= 5;
window_Hz= 12;
Root_dAM_power_dir= ['D:\Dropbox\Pitts_files\Aravind_ExpAM\___manuscript\dAM_power_data\' sprintf('%.0fms_%.0fHz', delay_ms, window_Hz) filesep];
%%
[human_dAM_data, human_SAM_data, lin_mdl_hu... |
741306192118d8f2ea45440f469bcf8da222db4f7dfa5ba6aaf3162dc72b2ed6 | MATLAB | 24,589 | 596 | function see_replay_update(input)
global time
global replay_index
global data
global FIG
global GUI_handle
global parameters
global tagged_replay
global new_index
%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
if strcmp(input,'load') %load data
parameters = list_of_parameters;
GUI_handle = gcbf;
FIG = figure;
tagg... |
4d030ac3e0b3af09be8ecf2199bc5a395c18ecb6a6d14a8e04da3e68ca42611e | MATLAB | 24,641 | 598 | function varargout = jbm_synapseScoringGUI3(varargin)
% JBM_SYNAPSESCORINGGUI3 M-file for jbm_synapseScoringGUI3.fig
% JBM_SYNAPSESCORINGGUI3, by itself, creates a new JBM_SYNAPSESCORINGGUI3 or raises the existing
% singleton*.
%
% H = JBM_SYNAPSESCORINGGUI3 returns the handle to a new JBM_SYNAPSESC... |
f1b1cecef5b6a2b07b9548c913cd435e5cb4d772b93deb9f681409a1368f2330 | MATLAB | 24,645 | 578 | function [cfg] = ft_singleplotTFR(cfg, data)
% FT_SINGLEPLOTTFR plots the time-frequency representation of power of a
% single channel or the average over multiple channels.
%
% Use as
% ft_singleplotTFR(cfg,data)
%
% The input freq structure should be a a time-frequency representation of
% power or coherence that w... |
73c443561ff6d5f57e94df656f81e275afd9deadb7bb01944694c9dd0193b288 | MATLAB | 24,647 | 470 | function [dat, label, time, cfg] = preproc(dat, label, time, cfg, begpadding, endpadding)
% PREPROC applies various preprocessing steps on a piece of EEG/MEG data
% that already has been read from a data file.
%
% This function can serve as a subfunction for all FieldTrip modules that
% want to preprocess the data, su... |
c663466d3ed6fd85a38d07d5d6891c98893e73b4ddf56b224d16a1cef42d5f67 | MATLAB | 24,647 | 470 | function [dat, label, time, cfg] = preproc(dat, label, time, cfg, begpadding, endpadding)
% PREPROC applies various preprocessing steps on a piece of EEG/MEG data
% that already has been read from a data file.
%
% This function can serve as a subfunction for all FieldTrip modules that
% want to preprocess the data, su... |
135f6592a3313b3d22a9420528255e1a3966b05d6990dc6732b630df090c2b42 | MATLAB | 24,728 | 676 | function ft_write_data(filename, dat, varargin)
% FT_WRITE_DATA exports electrophysiological data such as EEG to a file.
%
% Use as
% ft_write_data(filename, dat, ...)
%
% The specified filename can contain the filename extension. If it has no filename
% extension not, it will be added automatically.
%
% Additional... |
85e321826f0eca483bd94e85e948b457036df4c49825baf2b383abf5273f8553 | MATLAB | 24,732 | 583 | function Swarm(x, y, varargin)
% Updated SymphonicBeeSwarm
% Produces a distribution of points akin to a beeswarm, violin, or box and whisker
% Swarm(x, y, varargin)
% Only supports a single group at a time as this reduces ambiguity in matrix dimensions.
% First check x & y for validity
if isnumeric(x) && all(size(x) ... |
67699c56bed1e0d9bab9512cc46611a3e11e83f29e74dbd0408ebb9a58f9b336 | MATLAB | 24,774 | 535 | function op = calculateEventSpikingSequences(analysisParam, modelParam, paramResultsStruct, paramPFresultsStruct, spikeTimeCell, varargin)
% op = grid.calculateEventSpikingSequences(analysisParam, modelParam, resultsStruct, PFresultsStruct, spikeTimeCell)
%
% Runs the analysis across networks at the specified parameter... |
90ba5ad68b568c1331687c040bbd751ea919dfa2439793d328cbb9086696870e | MATLAB | 24,781 | 841 | %% paths
addpath /groups/branson/home/bransonk/behavioranalysis/code/Jdetect/Jdetect/misc;
addpath /groups/branson/home/bransonk/behavioranalysis/code/Jdetect/Jdetect/filehandling;
addpath(genpath('..'));
datatype = 'roian';
switch datatype,
case 'stephen'
rootdatadir = '/groups/branson/bransonlab/mayank/step... |
e0bda35c03b8e3f060d1cb773850472517327d9998f4524b5fbe722a1c6c1556 | MATLAB | 24,794 | 503 | function plot_ground_truth_cell_id_shuffle_validation(folders,option,method)
total_number{1}(1:3) = 0;
total_number{2}(1:3) = 0;
for nfolder = 1:length(folders) % Get total number of replay events
for nshuffle = 1:2 % 1 is original and 2 is global remapped
session_total_number{nshuffle}(nfolder,1:3) = 0;
... |
63336d9ce91b44bb6d0abd227ad02b3fcb92dd23100f8906662e3d1c0060c9d3 | MATLAB | 24,865 | 583 | function c = multiprod(a, b, idA, idB)
% Multiplying 1-D or 2-D subarrays contained in two N-D arrays.
%
% C = MULTIPROD(A,B) is equivalent to C = MULTIPROD(A,B,[1 2],[1 2])
% C = MULTIPROD(A,B,[D1 D2]) is eq. to C = MULTIPROD(A,B,[D1 D2],[D1 D2])
% C = MULTIPROD(A,B,D1) is equival. to C = MULTIPROD(A,B,D1... |
db14827ed15413a4c76cbe80e0d4ea002489bb2745a6e8cda785ab997485a0c4 | MATLAB | 24,880 | 719 | function [cfg, M] = ft_sourcemovie(cfg, source, source2)
% FT_SOURCEMOVIE displays the source reconstruction on a cortical mesh
% and allows the user to scroll through time with a movie.
%
% Use as
% ft_sourcemovie(cfg, source)
% where the input source data is obtained from FT_SOURCEANALYSIS, or a
% a parcellated ... |
f9442c50431228b045d05fe2e657784da7bb4f6888605ee5c8ec8a790a171af8 | MATLAB | 24,905 | 947 | %% Task data preparation
% 6 prefrontal channels that were significantly activated during the Test
% phase (Ch 30, Ch 34, Ch 35, Ch 38, Ch 39, Ch 43, termed seed channels from here onwards)
clear all
clc
load incongruent_allsub_2probe_final.mat
load congruent_allsub_2probe_final.mat
% for congruent condition
N_sub = l... |
5505bf3246e03ea3d54cf4ceaea8425767f59798880ab471db4ceb187786d0c1 | MATLAB | 24,924 | 618 | classdef ComponentPatch < diffgeometry.Map
% Multi-component object that can be contracted as a tensor
% (and therefore raised and lowered)
% but includes non-tensors like Jacobian and connection.
% TODO: save time + memory by storing and using index permutation symmetries
%--------------... |
4fe8fcb15229a53edf78083f0d8f97efce666c1cef674df7c9e399caa25b38b5 | MATLAB | 24,951 | 619 | function [cfg] = ft_singleplotER(cfg, varargin)
% FT_SINGLEPLOTER plots the event-related fields or potentials of a single
% channel or the average over multiple channels. Multiple datasets can be
% overlayed.
%
% Use as
% ft_singleplotER(cfg, data)
% or
% ft_singleplotER(cfg, data1, data2, ..., datan)
%
% The dat... |
a0e99236008f348d148e56598aabf5c4978bd5765fbc0911374474d70d36fb1b | MATLAB | 24,962 | 536 | % RunAnalysis.m
% Sarah West
% 3/11/21
% A function that abstracts & generalizes all for loops, loading,
% calculations, and saving for analysis done by the Ebner lab. Information
% and parameters need to be formatted properly into the "parameters"
% structure.
% Functions are given as a cell array of function handl... |
c4507efb80bb176d298ea4e9959324a754eceb46547b5f4f78e6e597a2314d11 | MATLAB | 24,972 | 645 | % AUTHORSHIP
% Primary Developer: Stephen Meehan <swmeehan@stanford.edu>
% Math Lead & Secondary Developer: Connor Meehan <connor.gw.meehan@gmail.com>
% Bioinformatics Lead: Wayne Moore <wmoore@stanford.edu>
% Provided by the Herzenberg Lab at Stanford University
% License: BSD 3 clause
%
classdef UMAP... |
989fe6bf23677ad62670269d584084bee85e29079b308ba35e5ceac892f8b207 | MATLAB | 25,014 | 650 | function Params = CBIG_MSHBM_estimate_group_priors(project_dir,mesh,num_sub,num_sess,num_clusters,max_iter)
% Params = CBIG_MSHBM_generate_individual_parcellation_FS(project_dir,mesh,sub,sess,num_clusters,max_iter)
%
% This script will estimate group priors for individual-level parcellation
% generation. The estimated... |
8920b3d024e95e71288f81666a53252de723e3154aecce97331e4d8a7104f9cb | MATLAB | 25,119 | 725 | classdef (Abstract) LabelTracker < handle
% Tracker base class
% LabelTracker has two responsibilities:
% 1. Take a bunch of images+labels and learn a classifier to
% predict/track labels on new images.
% 2. Store the predictions generated in 1, as well as any related
% tracking diagnostics
%
%... |
86b363015ded2d2950a52e80fb5619ad03f647c1cfd16efade3e4d731cc05f44 | MATLAB | 25,151 | 585 | classdef spherelikeFitter < surfaceFitting.surfaceFitter
%spherelikeFitter Fit spherelike point cloud using polynomials
%---------------------------------------------------------------------
% license
%---------------------------------------------------------------------
% Copyright 2015 Idse ... |
67c281ba26388e7cfb6eb9ff1749d27b8be21d65033de67c02bd0bd062e6f83e | MATLAB | 25,183 | 572 | classdef cylinderMeshWrapper < surfaceFitting.meshWrapper
% Generate a SurfaceOfInterest object with atlas containing cylinder
% charts from an externally produced triangular mesh representation of
% a surface. This is not possible for all surfaces.
%-------------------------------------------... |
7ba0c015b19ce393f533605711d135bd56ef28d49f826aa571c6eedfd1b607c1 | MATLAB | 25,219 | 670 | function [input] = ft_apply_montage(input, montage, varargin)
% FT_APPLY_MONTAGE changes the montage (i.e. linear combination) of a set of
% electrode or gradiometer channels. A montage can be used for EEG rereferencing, MEG
% synthetic gradients, MEG planar gradients or unmixing using ICA. This function not
% only ap... |
740dc8fd4d1026b9dc1d00c90cce6b1678bd47714a1d1e16247d0d91b0392f2b | MATLAB | 25,248 | 639 | function [D,A] = meg_peakAnalysis(D4,nChOI,groupC,expt,user,slice)
% function [D,A] = meg_peakAnalysis(D4,nChOI,groupC,expt,user,slice)
% Finds peak amplitudes and timings of targets evoked response by condition
% averages channels (nChOI) > per condition per subject
% averages and plots
% April 2020
% D4 = data st... |
ad01c153695f0048a4263cdd446618f2438dcf5ece8fc5d13fdacef6522b2bf6 | MATLAB | 25,273 | 570 | % pipeline_DFF_means.m
% Sarah West
% 11/29/22
%% Initial Setup
% Put all needed paramters in a structure called "parameters", which you
% can then easily feed into your functions.
clear all;
% Create the experiment name.
parameters.experiment_name = 'Random Motorized Treadmill';
% Input directory name base
par... |
3544a58a1de6d8b3907ad58aa8fbe2e7aed13aa6dd463b5422100a19be926553 | MATLAB | 25,282 | 770 | % mediation_zeta_control
load(fullfile(saveLoc, 'sig_allSessions'),...
'sigSL')
S = sigSL;
% Analysis parameters
max_coh = 0.1;
minRT = 0.67;
maxRT = 2;
start_t = 0.39;
end_t = 0.5;
session = S.session;
times = S.t;
dt = times(2) - times(1);
choice = S.choice;
RT = S.rt;
coh = S.sig_coh;
str =... |
a9822c3e270731e6c30d9a461f2990a58ada649b31ab0f7a18f3137583ee213a | MATLAB | 25,354 | 441 | function PARAMS = initializeSession( subjectName, subjectID, deviceName )
% (c) Coraline Rinn Iordan 10/2017, 02/2018, 03/2018, 04/2018, 06/2018
if nargin < 2, error( 'Must provide subject name and ID.' ); end
if nargin < 3, deviceName = 'SKYRA.CurrentDesign'; end
initStartTime = GetSecs;
%%%%%%%%%%%%%
%%% SETUP %%... |
307c6f54d2a929ab318cc3375deadb5841ba1041fe549c3356ffd0e2a036bc87 | MATLAB | 25,374 | 542 | function [] = plot_ground_truth_compare_jump_distance_backup_15_06(folders,option,method)
total_number(1:3) = 0;
for nfolder = 1:length(folders)
cd(folders{nfolder})
load decoded_replay_events
[~,time_range]=sort_replay_events([],'wcorr');
for event = 1:length(decoded_replay_events(1).re... |
67c1ba101ff09dd071393c50ff4ea610a74dcb984481603b8627757ba4fd99fe | MATLAB | 25,378 | 912 | % Cardiac model ToR-ORd-Land for acute and chronic myocardial infarction
% Copyright (C) 2024 Xin Zhou. Contact: xin.zhou.joy@hotmail.com
%
% 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 Softwar... |
fd1ff624c286b0e146719af3a7b2a48015edeb874b42ecda1208f9bdd47ed3b8 | MATLAB | 25,473 | 714 | %% ============== Model-free analysis ===================== %%
%% refrence and citation
%%%%Project name : A casual role of right dorsolateral prefrontal cortex in
%%%%random exploration
%%%%%%%%%%% This code were modified version of the the available code in Zajkowski et al 2017 article
%%%Zajkowski, Wojcie... |
0f8246356578e25aeb63b9e4ea705f401721457556a2ce31ec84b4e58722af20 | MATLAB | 25,537 | 718 | % miro :: Measured Impulse Response Object
%
% miro Class Definition
%
% 2012 by Benjamin Bernschütz (bBrn)
% Cologne University of Applied Sciences
% Institute of Communication Systems
% mail benjamin.bernschuetz@fh-koeln.de
% GSM +49 171 4176069
% Phone +49 221 8275 2496
%
% ... |
d2f4dc3e07bf153070a7ffc32a0acc0008a5e379dbf178a3ec366d9920ee5d4d | MATLAB | 25,560 | 690 | classdef vplayer < matlab.mixin.SetGet
%VPLAYER Image video/stack player class.
% Usage:
% vplayer(S)
%
% See also: imstacksc
properties (SetAccess = immutable)
numFrames, numChannels, frameSize
end
properties
S % stack
matField % variable name of stack i... |
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