Performance gains with Compute Unified Device Architecture-enabled eddy current correction for diffusion MRI.

Abstract:

:Correcting for eddy currents, movement-induced distortion and gradient inhomogeneities is imperative when processing diffusion MRI (dMRI) data, but is highly computing resource-intensive. Recently, Compute Unified Device Architecture (CUDA) was implemented for the widely-used eddy-correction software, 'eddy', which reduces processing time and allows more comprehensive correction. We investigated processing speed, performance and compatibility of CUDA-enabled eddy-current correction processing compared to commonly-used non-CUDA implementations. Four representative dMRI datasets from the Human Connectome Project, Alzheimer's Disease Neuroimaging Initiative and Chronic Diseases Connectome Project were processed on high-specification and regular workstations through three different configurations of 'eddy'. Processing times and graphics processing unit (GPU) resources used were monitored and compared. Using CUDA reduced the 'eddy' processing time by a factor of up to five. The CUDA slice-to-volume correction method was also faster than non-CUDA eddy except when datasets were large. We make a series of recommendations for eddy configuration and hardware. We suggest that users of eddy-correction software for dMRI processing utilise CUDA and take advantage of the slice-to-volume correction option. We recommend that users run eddy on computers with at least 32GB motherboard random access memory (RAM), and a graphics card with at least 4.5GB RAM and 3750 cores to optimise processing time.

journal_name

Neuroreport

journal_title

Neuroreport

authors

Maller JJ,Grieve SM,Vogrin SJ,Welton T

doi

10.1097/WNR.0000000000001475

subject

Has Abstract

pub_date

2020-07-10 00:00:00

pages

746-753

issue

10

eissn

0959-4965

issn

1473-558X

pii

00001756-202007010-00012

journal_volume

31

pub_type

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