PyRadGUI: A GUI based radiomics extractor software

Umesh Sherkhane; Ashish Jha; Sneha Mithun - Nair; Vinay Jaiswar; Alberto Traverso; Leonard Wee; Venkatesh Rangarajan; Andre Dekker

doi:10.12688/f1000research.129826.1

PyRadGUI: A GUI based radiomics extractor software

Umesh Sherkhane, Ashish Jha^*, Sneha Mithun - Nair, Vinay Jaiswar, Alberto Traverso, Leonard Wee, Venkatesh Rangarajan, Andre Dekker

^*Corresponding author for this work

Research output: Contribution to journal › Article › Academic › peer-review

Abstract

Radiomics is the method of extracting high throughput mathematical and statistical features from medical images. These features have the potential to characterize the underlying pathology of the disease that is inappreciable to a trained human eye. There are several open-source and licensed tools to extract radiomic features such as pyradiomics, LIFEx, TexRAD, and RaCat. Although pyradiomics is a widely used radiomics package by researchers, this software is not very user-friendly and can be run using a command line. We have developed and validated the GUI tool, PyRadGUI to make the radiomics software easy to operate. This software adheres to IBSI radiomic feature definition and implements the radiomic pipeline in batch processing to extract radiomic features from multiple patient’s data and stores it in a comma separated value (CSV). We validated PyRadGUI software with the existing pyradiomic pipeline.

Original language	English
Article number	259
Number of pages	11
Journal	F1000Research
Volume	12
Issue number	:259
Early online date	10 Mar 2023
DOIs	https://doi.org/10.12688/f1000research.129826.1
Publication status	Published - 2023

Keywords

3DSlicer
Graphical User Interface (GUI)
machine learning
plastimatch
pyradiomics
radiomics

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https://f1000research.com/articles/12-259

Cite this

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title = "PyRadGUI: A GUI based radiomics extractor software",

abstract = "Radiomics is the method of extracting high throughput mathematical and statistical features from medical images. These features have the potential to characterize the underlying pathology of the disease that is inappreciable to a trained human eye. There are several open-source and licensed tools to extract radiomic features such as pyradiomics, LIFEx, TexRAD, and RaCat. Although pyradiomics is a widely used radiomics package by researchers, this software is not very user-friendly and can be run using a command line. We have developed and validated the GUI tool, PyRadGUI to make the radiomics software easy to operate. This software adheres to IBSI radiomic feature definition and implements the radiomic pipeline in batch processing to extract radiomic features from multiple patient{\textquoteright}s data and stores it in a comma separated value (CSV). We validated PyRadGUI software with the existing pyradiomic pipeline.",

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author = "Umesh Sherkhane and Ashish Jha and {Mithun - Nair}, Sneha and Vinay Jaiswar and Alberto Traverso and Leonard Wee and Venkatesh Rangarajan and Andre Dekker",

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AU - Sherkhane, Umesh

AU - Jha, Ashish

AU - Mithun - Nair, Sneha

AU - Jaiswar, Vinay

AU - Traverso, Alberto

AU - Wee, Leonard

AU - Rangarajan, Venkatesh

AU - Dekker, Andre

PY - 2023

Y1 - 2023

N2 - Radiomics is the method of extracting high throughput mathematical and statistical features from medical images. These features have the potential to characterize the underlying pathology of the disease that is inappreciable to a trained human eye. There are several open-source and licensed tools to extract radiomic features such as pyradiomics, LIFEx, TexRAD, and RaCat. Although pyradiomics is a widely used radiomics package by researchers, this software is not very user-friendly and can be run using a command line. We have developed and validated the GUI tool, PyRadGUI to make the radiomics software easy to operate. This software adheres to IBSI radiomic feature definition and implements the radiomic pipeline in batch processing to extract radiomic features from multiple patient’s data and stores it in a comma separated value (CSV). We validated PyRadGUI software with the existing pyradiomic pipeline.

AB - Radiomics is the method of extracting high throughput mathematical and statistical features from medical images. These features have the potential to characterize the underlying pathology of the disease that is inappreciable to a trained human eye. There are several open-source and licensed tools to extract radiomic features such as pyradiomics, LIFEx, TexRAD, and RaCat. Although pyradiomics is a widely used radiomics package by researchers, this software is not very user-friendly and can be run using a command line. We have developed and validated the GUI tool, PyRadGUI to make the radiomics software easy to operate. This software adheres to IBSI radiomic feature definition and implements the radiomic pipeline in batch processing to extract radiomic features from multiple patient’s data and stores it in a comma separated value (CSV). We validated PyRadGUI software with the existing pyradiomic pipeline.

KW - 3DSlicer

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KW - plastimatch

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PyRadGUI: A GUI based radiomics extractor software

Abstract

Keywords

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