Parallel Workflows for Data-driven Structural Equation Modeling in Functional Neuroimaging

Overview

Journal Front Neuroinform

Specialty Neurology

Date 2009 Oct 31

PMID 19876406

Citations 3

Authors

Sarah Kenny

Michael Andric

Steven M Boker

Michael C Neale

Michael Wilde

Steven L Small

Affiliations

Soon will be listed here.

Abstract

We present a computational framework suitable for a data-driven approach to structural equation modeling (SEM) and describe several workflows for modeling functional magnetic resonance imaging (fMRI) data within this framework. The Computational Neuroscience Applications Research Infrastructure (CNARI) employs a high-level scripting language called Swift, which is capable of spawning hundreds of thousands of simultaneous R processes (R Development Core Team, 2008), consisting of self-contained SEMs, on a high performance computing system (HPC). These self-contained R processing jobs are data objects generated by OpenMx, a plug-in for R, which can generate a single model object containing the matrices and algebraic information necessary to estimate parameters of the model. With such an infrastructure in place a structural modeler may begin to investigate exhaustive searches of the model space. Specific applications of the infrastructure, statistics related to model fit, and limitations are discussed in relation to exhaustive SEM. In particular, we discuss how workflow management techniques can help to solve large computational problems in neuroimaging.

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