Literature DB >> 32289453

The open EEGLAB portal Interface: High-Performance computing with EEGLAB.

Ramón Martínez-Cancino1, Arnaud Delorme2, Dung Truong2, Fiorenzo Artoni3, Kenneth Kreutz-Delgado4, Subhashini Sivagnanam5, Kenneth Yoshimoto5, Amitava Majumdar5, Scott Makeig2.   

Abstract

EEGLAB signal processing environment is currently the leading open-source software for processing electroencephalographic (EEG) data. The Neuroscience Gateway (NSG, nsgportal.org) is a web and API-based portal allowing users to easily run a variety of neuroscience-related software on high-performance computing (HPC) resources in the U.S. XSEDE network. We have reported recently (Delorme et al., 2019) on the Open EEGLAB Portal expansion of the free NSG services to allow the neuroscience community to build and run MATLAB pipelines using the EEGLAB tool environment. We are now releasing an EEGLAB plug-in, nsgportal, that interfaces EEGLAB with NSG directly from within EEGLAB running on MATLAB on any personal lab computer. The plug-in features a flexible MATLAB graphical user interface (GUI) that allows users to easily submit, interact with, and manage NSG jobs, and to retrieve and examine their results. Command line nsgportal tools supporting these GUI functionalities allow EEGLAB users and plug-in tool developers to build largely automated functions and workflows that include optional NSG job submission and processing. Here we present details on nsgportal implementation and documentation, provide user tutorials on example applications, and show sample test results comparing computation times using HPC versus laptop processing.
Copyright © 2020 The Authors. Published by Elsevier Inc. All rights reserved.

Entities:  

Mesh:

Year:  2020        PMID: 32289453      PMCID: PMC8341158          DOI: 10.1016/j.neuroimage.2020.116778

Source DB:  PubMed          Journal:  Neuroimage        ISSN: 1053-8119            Impact factor:   6.556


  40 in total

1.  Translating network models to parallel hardware in NEURON.

Authors:  M L Hines; N T Carnevale
Journal:  J Neurosci Methods       Date:  2007-09-16       Impact factor: 2.390

2.  RELICA: a method for estimating the reliability of independent components.

Authors:  Fiorenzo Artoni; Danilo Menicucci; Arnaud Delorme; Scott Makeig; Silvestro Micera
Journal:  Neuroimage       Date:  2014-09-16       Impact factor: 6.556

3.  Ways toward an early diagnosis in Alzheimer's disease: the Alzheimer's Disease Neuroimaging Initiative (ADNI).

Authors:  Susanne G Mueller; Michael W Weiner; Leon J Thal; Ronald C Petersen; Clifford R Jack; William Jagust; John Q Trojanowski; Arthur W Toga; Laurel Beckett
Journal:  Alzheimers Dement       Date:  2005-07       Impact factor: 21.566

4.  Early experiences in developing and managing the neuroscience gateway.

Authors:  Subhashini Sivagnanam; Amit Majumdar; Kenneth Yoshimoto; Vadim Astakhov; Anita Bandrowski; MaryAnn Martone; Nicholas T Carnevale
Journal:  Concurr Comput       Date:  2015-02-01       Impact factor: 1.536

5.  PoPLAR: Portal for Petascale Lifescience Applications and Research.

Authors:  Bhanu Rekapalli; Paul Giblock; Christopher Reardon
Journal:  BMC Bioinformatics       Date:  2013-06-28       Impact factor: 3.169

6.  Brainstorm: a user-friendly application for MEG/EEG analysis.

Authors:  François Tadel; Sylvain Baillet; John C Mosher; Dimitrios Pantazis; Richard M Leahy
Journal:  Comput Intell Neurosci       Date:  2011-04-13

7.  FieldTrip: Open source software for advanced analysis of MEG, EEG, and invasive electrophysiological data.

Authors:  Robert Oostenveld; Pascal Fries; Eric Maris; Jan-Mathijs Schoffelen
Journal:  Comput Intell Neurosci       Date:  2010-12-23

8.  PyNN: A Common Interface for Neuronal Network Simulators.

Authors:  Andrew P Davison; Daniel Brüderle; Jochen Eppler; Jens Kremkow; Eilif Muller; Dejan Pecevski; Laurent Perrinet; Pierre Yger
Journal:  Front Neuroinform       Date:  2009-01-27       Impact factor: 4.081

9.  An open resource for transdiagnostic research in pediatric mental health and learning disorders.

Authors:  Lindsay M Alexander; Jasmine Escalera; Lei Ai; Charissa Andreotti; Karina Febre; Alexander Mangone; Natan Vega-Potler; Nicolas Langer; Alexis Alexander; Meagan Kovacs; Shannon Litke; Bridget O'Hagan; Jennifer Andersen; Batya Bronstein; Anastasia Bui; Marijayne Bushey; Henry Butler; Victoria Castagna; Nicolas Camacho; Elisha Chan; Danielle Citera; Jon Clucas; Samantha Cohen; Sarah Dufek; Megan Eaves; Brian Fradera; Judith Gardner; Natalie Grant-Villegas; Gabriella Green; Camille Gregory; Emily Hart; Shana Harris; Megan Horton; Danielle Kahn; Katherine Kabotyanski; Bernard Karmel; Simon P Kelly; Kayla Kleinman; Bonhwang Koo; Eliza Kramer; Elizabeth Lennon; Catherine Lord; Ginny Mantello; Amy Margolis; Kathleen R Merikangas; Judith Milham; Giuseppe Minniti; Rebecca Neuhaus; Alexandra Levine; Yael Osman; Lucas C Parra; Ken R Pugh; Amy Racanello; Anita Restrepo; Tian Saltzman; Batya Septimus; Russell Tobe; Rachel Waltz; Anna Williams; Anna Yeo; Francisco X Castellanos; Arno Klein; Tomas Paus; Bennett L Leventhal; R Cameron Craddock; Harold S Koplewicz; Michael P Milham
Journal:  Sci Data       Date:  2017-12-19       Impact factor: 6.444

10.  MEG-BIDS, the brain imaging data structure extended to magnetoencephalography.

Authors:  Guiomar Niso; Krzysztof J Gorgolewski; Elizabeth Bock; Teon L Brooks; Guillaume Flandin; Alexandre Gramfort; Richard N Henson; Mainak Jas; Vladimir Litvak; Jeremy T Moreau; Robert Oostenveld; Jan-Mathijs Schoffelen; Francois Tadel; Joseph Wexler; Sylvain Baillet
Journal:  Sci Data       Date:  2018-06-19       Impact factor: 6.444

View more
  2 in total

1.  Capturing the nature of events and event context using hierarchical event descriptors (HED).

Authors:  Kay Robbins; Dung Truong; Stefan Appelhoff; Arnaud Delorme; Scott Makeig
Journal:  Neuroimage       Date:  2021-11-27       Impact factor: 6.556

2.  Building FAIR Functionality: Annotating Events in Time Series Data Using Hierarchical Event Descriptors (HED).

Authors:  Kay Robbins; Dung Truong; Alexander Jones; Ian Callanan; Scott Makeig
Journal:  Neuroinformatics       Date:  2021-12-30
  2 in total

北京卡尤迪生物科技股份有限公司 © 2022-2023.