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The Effects of FreeSurfer Version, Workstation Type, and Macintosh Operating System Version on Anatomical Volume and Cortical Thickness Measurements

FreeSurfer is a popular software package to measure cortical thickness and volume of neuroanatomical structures. However, little if any is known about measurement reliability across various data processing conditions. Using a set of 30 anatomical T1-weighted 3T MRI scans, we investigated the effects...

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Autores principales: Gronenschild, Ed H. B. M., Habets, Petra, Jacobs, Heidi I. L., Mengelers, Ron, Rozendaal, Nico, van Os, Jim, Marcelis, Machteld
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Public Library of Science 2012
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3365894/
https://www.ncbi.nlm.nih.gov/pubmed/22675527
http://dx.doi.org/10.1371/journal.pone.0038234
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author Gronenschild, Ed H. B. M.
Habets, Petra
Jacobs, Heidi I. L.
Mengelers, Ron
Rozendaal, Nico
van Os, Jim
Marcelis, Machteld
author_facet Gronenschild, Ed H. B. M.
Habets, Petra
Jacobs, Heidi I. L.
Mengelers, Ron
Rozendaal, Nico
van Os, Jim
Marcelis, Machteld
author_sort Gronenschild, Ed H. B. M.
collection PubMed
description FreeSurfer is a popular software package to measure cortical thickness and volume of neuroanatomical structures. However, little if any is known about measurement reliability across various data processing conditions. Using a set of 30 anatomical T1-weighted 3T MRI scans, we investigated the effects of data processing variables such as FreeSurfer version (v4.3.1, v4.5.0, and v5.0.0), workstation (Macintosh and Hewlett-Packard), and Macintosh operating system version (OSX 10.5 and OSX 10.6). Significant differences were revealed between FreeSurfer version v5.0.0 and the two earlier versions. These differences were on average 8.8±6.6% (range 1.3–64.0%) (volume) and 2.8±1.3% (1.1–7.7%) (cortical thickness). About a factor two smaller differences were detected between Macintosh and Hewlett-Packard workstations and between OSX 10.5 and OSX 10.6. The observed differences are similar in magnitude as effect sizes reported in accuracy evaluations and neurodegenerative studies. The main conclusion is that in the context of an ongoing study, users are discouraged to update to a new major release of either FreeSurfer or operating system or to switch to a different type of workstation without repeating the analysis; results thus give a quantitative support to successive recommendations stated by FreeSurfer developers over the years. Moreover, in view of the large and significant cross-version differences, it is concluded that formal assessment of the accuracy of FreeSurfer is desirable.
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spelling pubmed-33658942012-06-06 The Effects of FreeSurfer Version, Workstation Type, and Macintosh Operating System Version on Anatomical Volume and Cortical Thickness Measurements Gronenschild, Ed H. B. M. Habets, Petra Jacobs, Heidi I. L. Mengelers, Ron Rozendaal, Nico van Os, Jim Marcelis, Machteld PLoS One Research Article FreeSurfer is a popular software package to measure cortical thickness and volume of neuroanatomical structures. However, little if any is known about measurement reliability across various data processing conditions. Using a set of 30 anatomical T1-weighted 3T MRI scans, we investigated the effects of data processing variables such as FreeSurfer version (v4.3.1, v4.5.0, and v5.0.0), workstation (Macintosh and Hewlett-Packard), and Macintosh operating system version (OSX 10.5 and OSX 10.6). Significant differences were revealed between FreeSurfer version v5.0.0 and the two earlier versions. These differences were on average 8.8±6.6% (range 1.3–64.0%) (volume) and 2.8±1.3% (1.1–7.7%) (cortical thickness). About a factor two smaller differences were detected between Macintosh and Hewlett-Packard workstations and between OSX 10.5 and OSX 10.6. The observed differences are similar in magnitude as effect sizes reported in accuracy evaluations and neurodegenerative studies. The main conclusion is that in the context of an ongoing study, users are discouraged to update to a new major release of either FreeSurfer or operating system or to switch to a different type of workstation without repeating the analysis; results thus give a quantitative support to successive recommendations stated by FreeSurfer developers over the years. Moreover, in view of the large and significant cross-version differences, it is concluded that formal assessment of the accuracy of FreeSurfer is desirable. Public Library of Science 2012-06-01 /pmc/articles/PMC3365894/ /pubmed/22675527 http://dx.doi.org/10.1371/journal.pone.0038234 Text en Gronenschild et al. http://creativecommons.org/licenses/by/4.0/ This is an open-access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are properly credited.
spellingShingle Research Article
Gronenschild, Ed H. B. M.
Habets, Petra
Jacobs, Heidi I. L.
Mengelers, Ron
Rozendaal, Nico
van Os, Jim
Marcelis, Machteld
The Effects of FreeSurfer Version, Workstation Type, and Macintosh Operating System Version on Anatomical Volume and Cortical Thickness Measurements
title The Effects of FreeSurfer Version, Workstation Type, and Macintosh Operating System Version on Anatomical Volume and Cortical Thickness Measurements
title_full The Effects of FreeSurfer Version, Workstation Type, and Macintosh Operating System Version on Anatomical Volume and Cortical Thickness Measurements
title_fullStr The Effects of FreeSurfer Version, Workstation Type, and Macintosh Operating System Version on Anatomical Volume and Cortical Thickness Measurements
title_full_unstemmed The Effects of FreeSurfer Version, Workstation Type, and Macintosh Operating System Version on Anatomical Volume and Cortical Thickness Measurements
title_short The Effects of FreeSurfer Version, Workstation Type, and Macintosh Operating System Version on Anatomical Volume and Cortical Thickness Measurements
title_sort effects of freesurfer version, workstation type, and macintosh operating system version on anatomical volume and cortical thickness measurements
topic Research Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3365894/
https://www.ncbi.nlm.nih.gov/pubmed/22675527
http://dx.doi.org/10.1371/journal.pone.0038234
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