Introduction to Neuroscience Gateway (NSG) enabling large scale modeling and data processing on supercomputers
Amit Majumdar, Subhashini Sivagnanam, Arno Delorme, Kenneth Yoshimoto - all University of California San Diego; Ted Carnevale, Yale University
Dates: 2 Sep 2021
Time: 12:00-16:00 EDT / 18:00-22:00 CEST
Target audience: This workshop is intended for computational, cognitive and experimental neuroscientists who use large scale modeling and data processing for their research. Computational neuroscientists who are building and using computational models of neurons and network of neurons, and cognitive neuroscientists who are processing EEG, fMRI and other types of data, as well as neuroscientist who are using machine learning for their research, will find this workshop of interest.
Registration deadline: 19 August 2021
Register for this session: CLOSED
Maximum participants: 75
About this workshop
The Neuroscience Gateway (NSG) provides about 15 widely used computational and data processing neuroscience software and pipelines on supercomputing resources for neuroscientists. Computational neuroscientists, cognitive neuroscientists, experimental neuroscientists and others use NSG for large scale modeling and data processing. NSG catalyzes neuroscience research by lowering or eliminating the administrative and technical barriers to use large scale computing for simulation and data processing. NSG is free and open to any neuroscience researcher from academia and non-profit organizations. NSG can be accessed through a simple web portal or programmatically using RESTful services. NSG provides an easy to use streamlined environment for uploading models or data, selecting neuroscience software of interest, specifying job parameters, querying running job status, receiving job completion notices, and storing and retrieving simulation or data processing results. NSG transparently distributes user's jobs to appropriate supercomputing resources. This workshop will (i) introduce attendees to NSG including information about supercomputers utilized by NSG, (ii) show how NSG can be easily used (attendees can do hands-on as NSG use is demonstrated) for modeling and data processing, and (iii) show two use cases of NSG for computational modeling (using NEURON) and data processing (using EEGLAB).
Agenda (times in EDT)
12:00 – 13:30 Introduction to NSG and demo/hands-on of using NSG
13:30 – 13:40 break
13:40 – 14:40 Introduction to NEURON and running of a NEURON model using NSG
14:40 – 14:50 break
14:50 – 15:50 Introduction to EEGLAB and processing of EEG data using NSG
15:50 – 16:00 Q/A
About NEURON and EEGLAB
The NEURON simulation environment is used in laboratories and classrooms around the world for building and using computational models of neurons and networks of neurons.
EEGLAB is an interactive Matlab toolbox for processing continuous and event-related EEG, MEG and other electrophysiological data incorporating independent component analysis (ICA), time/frequency analysis, artifact rejection, event-related statistics, and several useful modes of visualization of the averaged and single-trial data.