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Authors: Brandon Whitcher, Volker J. Schmid
Title: [download]
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Quantitative Analysis of Dynamic Contrast-Enhanced and Diffusion-Weighted Magnetic Resonance Imaging for Oncology in R
Reference: Vol. 44, Issue 5, Oct 2011
Submitted 2010-10-20, Accepted 2011-06-17
Type: Article
Abstract:

The package dcemriS4 provides a complete set of data analysis tools for quantitative assessment of dynamic contrast-enhanced magnetic resonance imaging (DCE-MRI). Image processing is provided for the ANALYZE and NIfTI data formats as input with all parameter estimates being output in NIfTI format. Estimation of T1 relaxation from multiple flip-angle acquisitions, using either constant or spatially-varying flip angles, is performed via nonlinear regression. Both literature-based and data-driven arterial input functions are available and may be combined with a variety of compartmental models. Kinetic parameters are obtained from nonlinear regression, Bayesian estimation via Markov chain Monte Carlo or Bayesian maximum a posteriori estimation. A non-parametric model, using penalized splines, is also available to characterize the contrast agent concentration time curves. Estimation of the apparent diffusion coefficient (ADC) is provided for diffusion-weighted imaging. Given the size of multi-dimensional data sets commonly acquired in imaging studies, care has been taken to maximize computational efficiency and minimize memory usage. All methods are illustrated using both simulated and real-world medical imaging data available in the public domain.

Paper: [download]
(2750)
Quantitative Analysis of Dynamic Contrast-Enhanced and Diffusion-Weighted Magnetic Resonance Imaging for Oncology in R
(application/pdf, 1.3 MB)
Supplements: [download]
(496)
dcemriS4_0.45.tar.gz: R source package
(application/x-gzip, 4.2 MB)
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v44i05.R: R example code from the paper
(application/octet-stream, 16.7 KB)
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Downloading-data.txt: Example data downloading instructions
(text/plain, 160 Bytes)
Resources: BibTeX | OAI
Creative Commons License
This work is licensed under the licenses
Paper: Creative Commons Attribution 3.0 Unported License
Code: GNU General Public License (at least one of version 2 or version 3)
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