Past Workshops Page
Using the Neuroscience Gateway Portal for Parallel Simulation
Satellite Symposium, Society for Neuroscience Meeting
Date: Nov. 12, 2016
Time: 9AM -12PM PST
Location: San Diego (Near Convention Center, exact location address will be emailed)
Registration: register here by October 28th, 2016; registration fee $25
Agenda can be downloaded here
This workshop combines didactic presentations and hands-on instruction
on how to use the Neuroscience Gateway Portal (NSG) for computationally intensive simulations and data analysis. NSG eliminates most technical and adminstrative barriers to using high performance computing (HPC) resources, and even gives away free CPU time on parallel supercomputers. Software currently installed on NSG includes Brian, GENESIS, MOOSE, NEST, NEURON, PyNN, Freesurfer, BluePyOpt and the Virtual Personalized Multimodal Connectome Pipeline.
Workshop will also include three research presentations by neuroscientists on computational neuroscience research topics and where the NSG is used to access HPC resources.
Using the Neuroscience Gateway Portal for Parallel Simulation
Satellite Symposium, Society for Neuroscience Meeting
Speakers include Amit Majumdar1, Subha Sivagnanam1,
Padraig Gleeson2, Simon Rothmeier3, Ted Carnevale4, Alex Peyser5, Hannah Bos5
1San Diego Supercomputer Center, UC San Diego
2Neuroscience, Physiology and Pharmacology, University College London
3Neurology, Charité - University Medicine Berlin, Germany
4Neurobiology, Yale University
5Forschungszentrum Jülich (Research Centre Jülich)
Date: Oct. 17, 2015
Registration: register here by October 2nd, 2015; registration fee $25
Time: 9:00AM - 12:00 PM CST
Location: Chicago, USA
Address: TBD(registered attendees will be informed)
Agenda can be downloaded here
This workshop is intended for neuroscientists who are already using, or would like to use, the Neuroscience Gateway (NSG http://www.nsgportal.org/) in their research. The NSG portal eliminates most administrative and technical barriers that face neuroscientists who need to use high-performance computing resources for large modeling projects and other computationally intensive tasks such as analysis of neuroimaging data. Its web-based interface simplifies the tasks of uploading models or data, specifying job parameters, monitoring job status, and storing and retrieving output data. Software currently installed includes the FreeSurfer Software Suite, the Virtual Brain Emperical Data Pipeline [1], and simulators such as Brian, GENESIS3, MOOSE, NEST[2,3], NEURON, and PyNN. The workshop will combine didactic presentations by NSG's developers, discussions with experienced users, and hands-on instruction in how to use the portal. Registration is limited so be sure to sign up early.
[1]Schirner, M., Rothmeier, S., Jirsa, V.K., McIntosh, A.R., Ritter, P..
An automated pipeline for constructing personalized virtual brains
from multimodal neuroimaging data.
Neuroimage 117:343-357, 2015.
[2] Kunkel S, Schmidt M, Eppler JM, Plesser HE, Masumoto G, Igarashi J, Ishii S, Fukai T, Morrison A, Diesmann M, Helias M (2014) Spiking network simulation code for petascale computers. Front. Neuroinform 8:78. DOI:10.3389/fninf.2014.00078.
[3] Hahne J, Helias M, Kunkel S, Igarashi J, Bolten M, Frommer A and Diesmann M (2015). A unified framework for spiking and gap-junction interactions in distributed neuronal network simulations. Front. Neuroinform. 9:22. doi: 10.3389/fninf.2015.00022
NEURON and Neuroscience Gateway Portal at CNS 2015
Date: Jul. 23, 2015
Location: Prague
Information: HPC CNS workshop
Running parallel simulations on HPC resources via the Neuroscience Gateway Portal
Date: July 30, 2014
Time: 9:00AM - 12:00 PM EST
Location: Quebec City, Canada
Agenda: [Click Here]
This workshop presents the the Neuroscience Gateway Portal at CNS 2014, Quebec City, Canada. Access to HPC resources is growing ever more important as advances in experimental a nd theoretical neuroscience drive the formulation of increasingly complex models and simulation projects that impose computational burdens exceeding the capabilities of l ocally available hardware. The NSG is designed to eliminate most administrative and technical barriers to using HPC resources. It offers free access to these resources through a streamlined applica tion process. Its web-based interface simplifies the tasks of uploading models, speci fying job parameters, monitoring job status, and storing and retrieving output data. Simulators currently installed include NEURON, GENESIS3, MOOSE, NEST, PyNN, and Brian. This workshop will combine didactic presentations by NSG's developers, discussions wi th developers of simulators for spiking neural networks, and hands on instruction in how to use the portal (participants are invited to bring laptop computers for this). Registration information to follow soon.
Using the Neuroscience Gateway Portal for Parallel Simulation
Date: November 9, 2013
Time: 9:00AM - 12:00 PM PST
Location: 350 10th Avenue, Suite 950, San Diego CA 92101
Direction and Location Map: http://goo.gl/maps/2d4ma
Agenda: [Click Here]
A workshop will be held in San Diego on Saturday, Nov. 9, 2013. This workshop is intended for neuroscientists who are already using, or would like to use, the NSG Portal for parallel simulations. It will combine didactic presentations by NSG's developers, discussions with experienced users, and hands on instruction in how to use the portal. For further information and the online registration form see http://www.neuron.yale.edu/neuron/static/courses/nsg2013/nsg2013.html.
Introduction to NSG
Date: March 14, 2013
Time: 10:00 - 12:00 PM PST
Location: SDSC & Online
San Diego Supercomputer Center (SDSC)
Synthesis Center - Room B143
10100 Hopkins Dr. UC San Diego
La Jolla, CA 92093-0505
Agenda: [Click Here]
Slides/Audio Recording: [here]
This workshop is offered in-person at SDSC and will also be webcasted.
Participant Information for Remote Attendees:
Venue and Telecon line opens at 9.30AM PST on March 14, 2013
ReadyTalk Screencast to view presentation slides:
Goto ReadyTalk, and enter access code 4428812.
Listen In (Audio):
You must dial-in by phone (or use Skype).
From U.S - dial 866.740.1260, enter access code: 4428812.
International callers, find your toll-free number at:
http://www.readytalk.com/account-administration/international-numbers
Once you connect, use access code: 4428812
This workshop introduces participants to the Neuroscience Gateway (NSG) being developed for the computational neuroscience community with funding from the National Science Foundation. The NSG provides easy and user friendly environment to access XSEDE high performance computing (HPC) resources to run computational neuroscience software such as NEURON, GENESIS, MOOSE etc. The NSG provides a simple web-based interface that makes it quick and easy to create an account, upload neuronal model code, run simulations and get back results.
The workshop will begin with an introduction of the NSG followed by a hands on session demonstrating the usage of the portal for uploading and running neuronal models on XSEDE resources. Attendees will use the NSG portal to upload neuronal models, set appropriate HPC parameters, run simulations using the NEURON software on XSEDE HPC resources, monitor simulation status, retrieve output results etc.