Does Neuroimaging Sometimes Have Your Head In The Clouds?

Neuroimaging is getting more complex — datasets are getting larger, creating greater storage and compute demands. Read below about how cloud computing can help.


Leverage AWS Cloud Computing for your Neuroimaging Data with NeuroStack

Cloud computing allows you to borrow compute resources on a pay-as-you-go basis. Research groups who were previously limited to running their analyses on their local or institutional systems can now choose a cloud platform to flexibly and scalably borrow the compute resources they need. Neuroimaging datasets are getting larger, creating greater storage and compute demands, and many of the largest neuroimaging datasets are already hosted on cloud platforms. This has prompted some researchers to wonder how they can work with data in the cloud, but migrating workflows and building data pipelines from scratch on a cloud platform can present a significant challenge.

We are proud to present NeuroStack, built through a collaboration between researchers at the Yale School of Medicine and the University of Massachusetts Medical School. NeuroStack is a tool to aid researchers working with neuroimaging data using AWS cloud computing. Little to no AWS experience is needed to use NeuroStack, and it is freely available to the research community on the NITRC website. When you download NeuroStack, you build a pipeline of AWS resources optimized for neuroimaging workflows into your AWS account. Researchers who previously would have needed to spend hours learning about and building AWS services from scratch can now use NeuroStack to immediately begin working with their data. To use NeuroStack, simply modify and upload a template script to fit your needs and upload your data. Your uploaded data will immediately begin processing according to your script.

What types of workflows can you use NeuroStack for? NeuroStack contains the NITRC computational environment (NITRC-CE), which means you can use NeuroStack to work with any of the software available in the NITRC-CE. This includes FSL, SPM, AFNI, FreeSurfer, PLINK, 3D Slicer, MRIcron, DTIPrep, scikit-learn, NEURON, and more.

You can download NeuroStack and find detailed instructions here. Watch the NeuroStack introduction video here.

- Hailey D'Silva, Neuroimaging Data Analyst, Yale School of Medicine


Improve How You Use DOIs

Citing tools/resources used in your research is becoming a best-practice in neuroimaging research. NITRC provides the option to mint a DOI for tool/resource Admins when they upload information to their tool/resource that may be cited. If you don't see one on a tool/resource, request that the Admin create one! Learn More About DOIs >


Data Highlight: CANDI Share Schizophrenia Bulletin

The CANDI Share Schizophrenia Bulletin 2008 contains structural data for 103 adolescent subjects with bipolar disorder and schizophrenia and healthy controls. The data was collected for a volumetric study and is released with expert manual segmentations of gray matter, white matter, and subcortical structures. View CANDI Data >


Leverage NITRC-CE LITE To Simplify Your Research

NITRC-CE LITE is a virtual computing platform pre-configured to run neuroimaging pipelines using the container technologies Docker and Singularity as well as Datalad, NeuroDocker, and NIPY. Use LITE instead of NITRC-CE Classic when processing images using container-based computational paradigms such as BIDS Apps. View NITRC-CE LITE on AWS >

Copyright (C) 2022 NeuroImaging Tools and Resources Collaboratory. All rights reserved.

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