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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...
Autores principales: | , , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
MDPI
2021
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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. |
format | Online Article Text |
id | pubmed-7830121 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2021 |
publisher | MDPI |
record_format | MEDLINE/PubMed |
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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