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Comparison of accuracy between FSL’s FIRST and Freesurfer for caudate nucleus and putamen segmentation
Although several methods have been developed to automatically delineate subcortical gray matter structures from MR images, the accuracy of these algorithms has not been comprehensively examined. Most of earlier studies focused primarily on the hippocampus. Here, we assessed the accuracy of two widel...
Autores principales: | , , , , , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
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Nature Publishing Group UK
2017
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5445091/ https://www.ncbi.nlm.nih.gov/pubmed/28546533 http://dx.doi.org/10.1038/s41598-017-02584-5 |
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author | Perlaki, Gabor Horvath, Reka Nagy, Szilvia Anett Bogner, Peter Doczi, Tamas Janszky, Jozsef Orsi, Gergely |
author_facet | Perlaki, Gabor Horvath, Reka Nagy, Szilvia Anett Bogner, Peter Doczi, Tamas Janszky, Jozsef Orsi, Gergely |
author_sort | Perlaki, Gabor |
collection | PubMed |
description | Although several methods have been developed to automatically delineate subcortical gray matter structures from MR images, the accuracy of these algorithms has not been comprehensively examined. Most of earlier studies focused primarily on the hippocampus. Here, we assessed the accuracy of two widely used non-commercial programs (FSL-FIRST and Freesurfer) for segmenting the caudate and putamen. T1-weighted 1 mm(3) isotropic resolution MR images were acquired for thirty healthy subjects (15 females). Caudate nucleus and putamen were segmented manually by two independent observers and automatically by FIRST and Freesurfer (v4.5 and v5.3). Utilizing manual labels as reference standard the following measures were studied: Dice coefficient (D), percentage volume difference (PVD), absolute volume difference as well as intraclass correlation coefficient (ICC) for consistency and absolute agreement. For putamen segmentation, FIRST achieved higher D, lower PVD and higher ICC for absolute agreement with manual tracing than either version of Freesurfer. Freesurfer overestimated the putamen, while FIRST was not statistically different from manual tracing. The ICC for consistency with manual tracing was similar between the two methods. For caudate segmentation, FIRST and Freesurfer performed more similarly. In conclusion, Freesurfer and FIRST are not equivalent when comparing to manual tracing. FIRST was superior for putaminal segmentation. |
format | Online Article Text |
id | pubmed-5445091 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2017 |
publisher | Nature Publishing Group UK |
record_format | MEDLINE/PubMed |
spelling | pubmed-54450912017-05-30 Comparison of accuracy between FSL’s FIRST and Freesurfer for caudate nucleus and putamen segmentation Perlaki, Gabor Horvath, Reka Nagy, Szilvia Anett Bogner, Peter Doczi, Tamas Janszky, Jozsef Orsi, Gergely Sci Rep Article Although several methods have been developed to automatically delineate subcortical gray matter structures from MR images, the accuracy of these algorithms has not been comprehensively examined. Most of earlier studies focused primarily on the hippocampus. Here, we assessed the accuracy of two widely used non-commercial programs (FSL-FIRST and Freesurfer) for segmenting the caudate and putamen. T1-weighted 1 mm(3) isotropic resolution MR images were acquired for thirty healthy subjects (15 females). Caudate nucleus and putamen were segmented manually by two independent observers and automatically by FIRST and Freesurfer (v4.5 and v5.3). Utilizing manual labels as reference standard the following measures were studied: Dice coefficient (D), percentage volume difference (PVD), absolute volume difference as well as intraclass correlation coefficient (ICC) for consistency and absolute agreement. For putamen segmentation, FIRST achieved higher D, lower PVD and higher ICC for absolute agreement with manual tracing than either version of Freesurfer. Freesurfer overestimated the putamen, while FIRST was not statistically different from manual tracing. The ICC for consistency with manual tracing was similar between the two methods. For caudate segmentation, FIRST and Freesurfer performed more similarly. In conclusion, Freesurfer and FIRST are not equivalent when comparing to manual tracing. FIRST was superior for putaminal segmentation. Nature Publishing Group UK 2017-05-25 /pmc/articles/PMC5445091/ /pubmed/28546533 http://dx.doi.org/10.1038/s41598-017-02584-5 Text en © The Author(s) 2017 Open Access This article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license, and indicate if changes were made. The images or other third party material in this article are included in the article’s Creative Commons license, unless indicated otherwise in a credit line to the material. If material is not included in the article’s Creative Commons license and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this license, visit http://creativecommons.org/licenses/by/4.0/. |
spellingShingle | Article Perlaki, Gabor Horvath, Reka Nagy, Szilvia Anett Bogner, Peter Doczi, Tamas Janszky, Jozsef Orsi, Gergely Comparison of accuracy between FSL’s FIRST and Freesurfer for caudate nucleus and putamen segmentation |
title | Comparison of accuracy between FSL’s FIRST and Freesurfer for caudate nucleus and putamen segmentation |
title_full | Comparison of accuracy between FSL’s FIRST and Freesurfer for caudate nucleus and putamen segmentation |
title_fullStr | Comparison of accuracy between FSL’s FIRST and Freesurfer for caudate nucleus and putamen segmentation |
title_full_unstemmed | Comparison of accuracy between FSL’s FIRST and Freesurfer for caudate nucleus and putamen segmentation |
title_short | Comparison of accuracy between FSL’s FIRST and Freesurfer for caudate nucleus and putamen segmentation |
title_sort | comparison of accuracy between fsl’s first and freesurfer for caudate nucleus and putamen segmentation |
topic | Article |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5445091/ https://www.ncbi.nlm.nih.gov/pubmed/28546533 http://dx.doi.org/10.1038/s41598-017-02584-5 |
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