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A R-Script for Generating Multiple Sclerosis Lesion Pattern Discrimination Plots

One significant characteristic of Multiple Sclerosis (MS), a chronic inflammatory demyelinating disease of the central nervous system, is the evolution of highly variable patterns of white matter lesions. Based on geostatistical metrics, the MS-Lesion Pattern Discrimination Plot reduces complex thre...

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Detalles Bibliográficos
Autores principales: Marschallinger, Robert, Tur, Carmen, Marschallinger, Hannes, Sellner, Johann
Formato: Online Artículo Texto
Lenguaje:English
Publicado: MDPI 2021
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7830121/
https://www.ncbi.nlm.nih.gov/pubmed/33445771
http://dx.doi.org/10.3390/brainsci11010090
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author Marschallinger, Robert
Tur, Carmen
Marschallinger, Hannes
Sellner, Johann
author_facet Marschallinger, Robert
Tur, Carmen
Marschallinger, Hannes
Sellner, Johann
author_sort Marschallinger, Robert
collection PubMed
description One significant characteristic of Multiple Sclerosis (MS), a chronic inflammatory demyelinating disease of the central nervous system, is the evolution of highly variable patterns of white matter lesions. Based on geostatistical metrics, the MS-Lesion Pattern Discrimination Plot reduces complex three- and four-dimensional configurations of MS-White Matter Lesions to a well-arranged and standardized two-dimensional plot that facilitates follow-up, cross-sectional and medication impact analysis. Here, we present a script that generates the MS-Lesion Pattern Discrimination Plot, using the widespread statistical computing environment R. Input data to the script are Nifti-1 or Analyze-7.5 files with individual MS-White Matter Lesion masks in Montreal Normal Brain geometry. The MS-Lesion Pattern Discrimination Plot, variogram plots and associated fitting statistics are output to the R console and exported to standard graphics and text files. Besides reviewing relevant geostatistical basics and commenting on implementation details for smooth customization and extension, the paper guides through generating MS-Lesion Pattern Discrimination Plots using publicly available synthetic MS-Lesion patterns. The paper is accompanied by the R script LDPgenerator.r, a small sample data set and associated graphics for comparison.
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spelling pubmed-78301212021-01-26 A R-Script for Generating Multiple Sclerosis Lesion Pattern Discrimination Plots Marschallinger, Robert Tur, Carmen Marschallinger, Hannes Sellner, Johann Brain Sci Article One significant characteristic of Multiple Sclerosis (MS), a chronic inflammatory demyelinating disease of the central nervous system, is the evolution of highly variable patterns of white matter lesions. Based on geostatistical metrics, the MS-Lesion Pattern Discrimination Plot reduces complex three- and four-dimensional configurations of MS-White Matter Lesions to a well-arranged and standardized two-dimensional plot that facilitates follow-up, cross-sectional and medication impact analysis. Here, we present a script that generates the MS-Lesion Pattern Discrimination Plot, using the widespread statistical computing environment R. Input data to the script are Nifti-1 or Analyze-7.5 files with individual MS-White Matter Lesion masks in Montreal Normal Brain geometry. The MS-Lesion Pattern Discrimination Plot, variogram plots and associated fitting statistics are output to the R console and exported to standard graphics and text files. Besides reviewing relevant geostatistical basics and commenting on implementation details for smooth customization and extension, the paper guides through generating MS-Lesion Pattern Discrimination Plots using publicly available synthetic MS-Lesion patterns. The paper is accompanied by the R script LDPgenerator.r, a small sample data set and associated graphics for comparison. MDPI 2021-01-12 /pmc/articles/PMC7830121/ /pubmed/33445771 http://dx.doi.org/10.3390/brainsci11010090 Text en © 2021 by the authors. Licensee MDPI, Basel, Switzerland. This article is an open access article distributed under the terms and conditions of the Creative Commons Attribution (CC BY) license (http://creativecommons.org/licenses/by/4.0/).
spellingShingle Article
Marschallinger, Robert
Tur, Carmen
Marschallinger, Hannes
Sellner, Johann
A R-Script for Generating Multiple Sclerosis Lesion Pattern Discrimination Plots
title A R-Script for Generating Multiple Sclerosis Lesion Pattern Discrimination Plots
title_full A R-Script for Generating Multiple Sclerosis Lesion Pattern Discrimination Plots
title_fullStr A R-Script for Generating Multiple Sclerosis Lesion Pattern Discrimination Plots
title_full_unstemmed A R-Script for Generating Multiple Sclerosis Lesion Pattern Discrimination Plots
title_short A R-Script for Generating Multiple Sclerosis Lesion Pattern Discrimination Plots
title_sort r-script for generating multiple sclerosis lesion pattern discrimination plots
topic Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7830121/
https://www.ncbi.nlm.nih.gov/pubmed/33445771
http://dx.doi.org/10.3390/brainsci11010090
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