CANDI Neuroimaging Access Point Releases

BabyBrain AwakeCoilTest

dnkennedy@www.nitrc.org (David Kennedy) — Tue, 12 Aug 2025 12:00:00 GMT

SchizBull_2008 Test Data

dnkennedy@www.nitrc.org (David Kennedy) — Thu, 27 Jun 2024 5:58:00 GMT

BabyBrain SampleData

dnkennedy@www.nitrc.org (David Kennedy) — Wed, 21 Jun 2023 12:44:00 GMT

<p>Sample Data (Input and reference Output) for initial BabyBrain Processing.</p>

Hierarchical EEG Coherence Analysis Version 1.0

dnkennedy@www.nitrc.org (David Kennedy) — Wed, 03 Feb 2021 12:40:00 GMT

Matlab files that accompany "Biomarkers Based on Comprehensive Hierarchical EEG Coherence Analysis: Example Application to Social Competence in Autism (Preliminary Results)" by Mo Modarres, David Cochran, David N. Kennedy, Richard Schmidt, Paula Fitzpatrick, and Jean A. Frazier.

[b]Usage Notes: BCMs.m[/b]
% BCMs.m is a Matlab Script that computes a General Brain Coherence Marker
% (BCM). BCM is based on EEG magnitude squared coherence estimate, computed
% over user specified:
% (1) Brain Regions
% (2) Time Periods
% (3) Frequency Bands
%
% by Mo H Modarres, PhD
% Eunice Kennedy Shriver Center
% University of Massachusetts Medical School
% 02/02/2021
%
% Usage:
% Step 1: Place EEG time series in a matrix X, where each column of X
% correspond to EEG data from a single EEG channel
%
% Step 2: Select the time period of analysis ;
%
% Step 3: Compute a matrix of coherence functions between all desired EEG
% pairs, using function BCMpairs.m. This step will produece
% a matrix of coherence functions with L columns,
% where L=Factorial[(No. of Columns of X) -1]
%
% Example if X consists of 4 EEG channels (4 columns of
% data), then a coherence matrix with Factorial(4-1)=3+2+1=6
% columns is produced, where each column corresponds to a coherence
% function beween unqiue pairs of EEG channels .
%
% Step 4: Perform Averaging of coherences of Step 3 over a specified
% frequency band:
%
% Step 5: Compute the averaged coherences of Step 4 over a specified brain
% region
%
% Define the following variables
%
% Tp = [k1 k2];where k1 and k2 correspond to the start and the end of
% analysis segment in Seconds
TP=[ ]
%
% Fs = Sampling frequency specified in Hertz.
Fs=

% Frq_Res= Frequency Resolution in Hertz.
Frq_Res=
% Overlap= a Value that selects the amount of overlap between two
% consecutive segments of analysis, in fraction of Fs, values
% 0.1 to 1.0; Default overlap=1;
Overlap=
% Frq_band=[f1,f2 ] where f1 and f2 correspond to the start and end of
% frequency band (in Hertz) over which the coherences will be
% averaged
Frq_band=[ ]
% ROI: Brain Region of Interest; ROI is a vector of numerical values that correpond
% to the column number of allcoh, which is a matrix of all coherence functions
% Each column is the coherence function from a single EEG pair
ROI=[]
% Output: Coh_F_Region_Average, a coherence value averaged over ROI and
% Frequency band of Interest

[b]Usage Notes: BCMpairs.m[/b]
% Computes COherence functions between any two EEG channels. Utlizes
% Matlab's MSCOHERE function, which calculates Magnitude Squared
% Coherence estimates using Welch's averaged, modified periodogram method,
% with values between 0 and 1 indicating the level of synchrocity between
% two EEG waveforms.
%
% Input Variables:
% X, Y: EEG channel data,
% Fs = Sampling frequency specified in hertz.
% Frq_Res= Frequency Resolution in hertz.
% Overlap= a Value that selects the amount of overlap between two consecutive
% segments of analysis, in fraction of Fs, values 0.1 to 1.0;
% Default overlap=1;

ReexecutabilitySurvey UnderlyingData

dnkennedy@www.nitrc.org (David Kennedy) — Thu, 30 Jul 2020 23:02:00 GMT

- S2_Raw_pubmed_Query_result.csv (complete PubMed query result from 1/23/2019)
- S3_CompleteSurveyData.xlsx (complete survey results)

Accompanies manuscript "An assessment of the autism neuroimaging literature for the prospects of re-executability" by Steven M. Hodge, Christian Haselgrove, Leah Honor, David N. Kennedy, Jean A. Frazier.

ReexecutabilitySurvey ExendedData

dnkennedy@www.nitrc.org (David Kennedy) — Thu, 30 Jul 2020 15:11:00 GMT

The complete (serialized) text of the CANDIShare re-executability survey. Accompanies manuscript "An assessment of the autism neuroimaging literature for the prospects of re-executability" by Steven M. Hodge, Christian Haselgrove, Leah Honor, David N. Kennedy, Jean A. Frazier.

Individual_Subjects_Test Subject_1

dnkennedy@www.nitrc.org (David Kennedy) — Mon, 18 Feb 2019 14:48:00 GMT

Individual_Subjects_Test ABCDish

dnkennedy@www.nitrc.org (David Kennedy) — Wed, 17 Jan 2018 22:48:00 GMT

Individual_Subjects_Test Elgan3_Phantom_UMass

dnkennedy@www.nitrc.org (David Kennedy) — Thu, 11 Jan 2018 18:16:00 GMT

Individual_Subjects_Test HC_001_V0.5

dnkennedy@www.nitrc.org (David Kennedy) — Thu, 26 Jun 2014 13:44:00 GMT