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RaCaT: An open source and easy to use radiomics calculator tool

PURPOSE: The widely known field ‘Radiomics’ aims to provide an extensive image based phenotyping of e.g. tumors using a wide variety of feature values extracted from medical images. Therefore, it is of utmost importance that feature values calculated by different institutes follow the same feature d...

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Detalles Bibliográficos
Autores principales: Pfaehler, Elisabeth, Zwanenburg, Alex, de Jong, Johan R., Boellaard, Ronald
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Public Library of Science 2019
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6382170/
https://www.ncbi.nlm.nih.gov/pubmed/30785937
http://dx.doi.org/10.1371/journal.pone.0212223
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author Pfaehler, Elisabeth
Zwanenburg, Alex
de Jong, Johan R.
Boellaard, Ronald
author_facet Pfaehler, Elisabeth
Zwanenburg, Alex
de Jong, Johan R.
Boellaard, Ronald
author_sort Pfaehler, Elisabeth
collection PubMed
description PURPOSE: The widely known field ‘Radiomics’ aims to provide an extensive image based phenotyping of e.g. tumors using a wide variety of feature values extracted from medical images. Therefore, it is of utmost importance that feature values calculated by different institutes follow the same feature definitions. For this purpose, the imaging biomarker standardization initiative (IBSI) provides detailed mathematical feature descriptions, as well as (mathematical) test phantoms and corresponding reference feature values. We present here an easy to use radiomic feature calculator, RaCaT, which provides the calculation of a large number of radiomic features for all kind of medical images which are in compliance with the standard. METHODS: The calculator is implemented in C++ and comes as a standalone executable. Therefore, it can be easily integrated in any programming language, but can also be called from the command line. No programming skills are required to use the calculator. The software architecture is highly modularized so that it is easily extendible. The user can also download the source code, adapt it if needed and build the calculator from source. The calculated feature values are compliant with the ones provided by the IBSI standard. Source code, example files for the software configuration, and documentation can be found online on GitHub (https://github.com/ellipfaehlerUMCG/RaCat). RESULTS: The comparison with the standard values shows that all calculated features as well as image preprocessing steps, comply with the IBSI standard. The performance is also demonstrated on clinical examples. CONCLUSIONS: The authors successfully implemented an easy to use Radiomics calculator that can be called from any programming language or from the command line. Image preprocessing and feature settings and calculations can be adjusted by the user.
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spelling pubmed-63821702019-03-01 RaCaT: An open source and easy to use radiomics calculator tool Pfaehler, Elisabeth Zwanenburg, Alex de Jong, Johan R. Boellaard, Ronald PLoS One Research Article PURPOSE: The widely known field ‘Radiomics’ aims to provide an extensive image based phenotyping of e.g. tumors using a wide variety of feature values extracted from medical images. Therefore, it is of utmost importance that feature values calculated by different institutes follow the same feature definitions. For this purpose, the imaging biomarker standardization initiative (IBSI) provides detailed mathematical feature descriptions, as well as (mathematical) test phantoms and corresponding reference feature values. We present here an easy to use radiomic feature calculator, RaCaT, which provides the calculation of a large number of radiomic features for all kind of medical images which are in compliance with the standard. METHODS: The calculator is implemented in C++ and comes as a standalone executable. Therefore, it can be easily integrated in any programming language, but can also be called from the command line. No programming skills are required to use the calculator. The software architecture is highly modularized so that it is easily extendible. The user can also download the source code, adapt it if needed and build the calculator from source. The calculated feature values are compliant with the ones provided by the IBSI standard. Source code, example files for the software configuration, and documentation can be found online on GitHub (https://github.com/ellipfaehlerUMCG/RaCat). RESULTS: The comparison with the standard values shows that all calculated features as well as image preprocessing steps, comply with the IBSI standard. The performance is also demonstrated on clinical examples. CONCLUSIONS: The authors successfully implemented an easy to use Radiomics calculator that can be called from any programming language or from the command line. Image preprocessing and feature settings and calculations can be adjusted by the user. Public Library of Science 2019-02-20 /pmc/articles/PMC6382170/ /pubmed/30785937 http://dx.doi.org/10.1371/journal.pone.0212223 Text en © 2019 Pfaehler 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 (http://creativecommons.org/licenses/by/4.0/) , which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited.
spellingShingle Research Article
Pfaehler, Elisabeth
Zwanenburg, Alex
de Jong, Johan R.
Boellaard, Ronald
RaCaT: An open source and easy to use radiomics calculator tool
title RaCaT: An open source and easy to use radiomics calculator tool
title_full RaCaT: An open source and easy to use radiomics calculator tool
title_fullStr RaCaT: An open source and easy to use radiomics calculator tool
title_full_unstemmed RaCaT: An open source and easy to use radiomics calculator tool
title_short RaCaT: An open source and easy to use radiomics calculator tool
title_sort racat: an open source and easy to use radiomics calculator tool
topic Research Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6382170/
https://www.ncbi.nlm.nih.gov/pubmed/30785937
http://dx.doi.org/10.1371/journal.pone.0212223
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