A Demonstration of STIR-GATE-Connection

Robert Twyman; Ludovica Brusaferri; Elise C. Emond; Francesca Leek; Simon Arridge; Brian F. Hutton; Vesna Cuplov; Kris Thielemans

doi:10.1109/nss/mic44867.2021.9875442

A Demonstration of STIR-GATE-Connection

Robert Twyman, Ludovica Brusaferri, Elise C. Emond, Francesca Leek, Simon Arridge, Brian F. Hutton, Vesna Cuplov, Kris Thielemans

Computer Science and Informatics

Research output: Chapter in Book/Report/Conference proceeding › Conference contribution › peer-review

1 Citation (Scopus)

Abstract

We present the first open-source version of STIR-GATE-Connection, a project that aims to provide an easy-to-use pipeline to simulate realistic PET data using GATE, followed by quantitative reconstruction using STIR. Monte Carlo simulations and image reconstruction are powerful research tools for emission tomography that can assist with the design of new medical imaging devices as well as the evaluation of novel image reconstruction algorithms and various correction techniques. STIR-GATE-Connection is a collection of scripts that aid with the: (i) setup of a realistic GATE simulation of a voxelised phantom using a user selected scanner configuration, (ii) conversion of the output list mode data into STIR compatible sinograms, and (iii) computation of additive and multiplicative data corrections for Poisson image reconstruction using STIR. In this work, we demonstrate example usage of these steps. A public release of STIR-GATE-Connection, licensed under the Apache 2.0 License, can be downloaded at: http://www.github.com/UCL/STIR-GATE-Connection.

Original language	English
Title of host publication	2021 IEEE Nuclear Science Symposium and Medical Imaging Conference Record, NSS/MIC 2021 and 28th International Symposium on Room-Temperature Semiconductor Detectors, RTSD 2022
Editors	Hideki Tomita, Tatsuya Nakamura
Publisher	Institute of Electrical and Electronics Engineers Inc.
ISBN (Electronic)	9781665421133
DOIs	https://doi.org/10.1109/nss/mic44867.2021.9875442 https://doi.org/10.1109/NSS/MIC44867.2021.9875442
Publication status	Published - 16 Oct 2021
Event	2021 IEEE Nuclear Science Symposium and Medical Imaging Conference, NSS/MIC 2021 - Virtual, Yokohama, Japan Duration: 16 Oct 2021 → 23 Oct 2021

Publication series

Name	2021 IEEE Nuclear Science Symposium and Medical Imaging Conference Record, NSS/MIC 2021 and 28th International Symposium on Room-Temperature Semiconductor Detectors, RTSD 2022

Conference

Conference	2021 IEEE Nuclear Science Symposium and Medical Imaging Conference, NSS/MIC 2021
Country/Territory	Japan
City	Virtual, Yokohama
Period	16/10/21 → 23/10/21

Bibliographical note

Publisher Copyright:
© 2021 IEEE.

Keywords

data-correction
image reconstruction
Monte Carlo simulation

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Cite this

Twyman, R., Brusaferri, L., Emond, E. C., Leek, F., Arridge, S., Hutton, B. F., Cuplov, V., & Thielemans, K. (2021). A Demonstration of STIR-GATE-Connection. In H. Tomita, & T. Nakamura (Eds.), 2021 IEEE Nuclear Science Symposium and Medical Imaging Conference Record, NSS/MIC 2021 and 28th International Symposium on Room-Temperature Semiconductor Detectors, RTSD 2022 (2021 IEEE Nuclear Science Symposium and Medical Imaging Conference Record, NSS/MIC 2021 and 28th International Symposium on Room-Temperature Semiconductor Detectors, RTSD 2022). Institute of Electrical and Electronics Engineers Inc.. https://doi.org/10.1109/nss/mic44867.2021.9875442, https://doi.org/10.1109/NSS/MIC44867.2021.9875442

Twyman, Robert ; Brusaferri, Ludovica ; Emond, Elise C. et al. / A Demonstration of STIR-GATE-Connection. 2021 IEEE Nuclear Science Symposium and Medical Imaging Conference Record, NSS/MIC 2021 and 28th International Symposium on Room-Temperature Semiconductor Detectors, RTSD 2022. editor / Hideki Tomita ; Tatsuya Nakamura. Institute of Electrical and Electronics Engineers Inc., 2021. (2021 IEEE Nuclear Science Symposium and Medical Imaging Conference Record, NSS/MIC 2021 and 28th International Symposium on Room-Temperature Semiconductor Detectors, RTSD 2022).

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keywords = "data-correction, image reconstruction, Monte Carlo simulation",

author = "Robert Twyman and Ludovica Brusaferri and Emond, {Elise C.} and Francesca Leek and Simon Arridge and Hutton, {Brian F.} and Vesna Cuplov and Kris Thielemans",

note = "Publisher Copyright: {\textcopyright} 2021 IEEE.; 2021 IEEE Nuclear Science Symposium and Medical Imaging Conference, NSS/MIC 2021 ; Conference date: 16-10-2021 Through 23-10-2021",

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Twyman, R, Brusaferri, L, Emond, EC, Leek, F, Arridge, S, Hutton, BF, Cuplov, V & Thielemans, K 2021, A Demonstration of STIR-GATE-Connection. in H Tomita & T Nakamura (eds), 2021 IEEE Nuclear Science Symposium and Medical Imaging Conference Record, NSS/MIC 2021 and 28th International Symposium on Room-Temperature Semiconductor Detectors, RTSD 2022. 2021 IEEE Nuclear Science Symposium and Medical Imaging Conference Record, NSS/MIC 2021 and 28th International Symposium on Room-Temperature Semiconductor Detectors, RTSD 2022, Institute of Electrical and Electronics Engineers Inc., 2021 IEEE Nuclear Science Symposium and Medical Imaging Conference, NSS/MIC 2021, Virtual, Yokohama, Japan, 16/10/21. https://doi.org/10.1109/nss/mic44867.2021.9875442, https://doi.org/10.1109/NSS/MIC44867.2021.9875442

A Demonstration of STIR-GATE-Connection. / Twyman, Robert; Brusaferri, Ludovica; Emond, Elise C. et al.
2021 IEEE Nuclear Science Symposium and Medical Imaging Conference Record, NSS/MIC 2021 and 28th International Symposium on Room-Temperature Semiconductor Detectors, RTSD 2022. ed. / Hideki Tomita; Tatsuya Nakamura. Institute of Electrical and Electronics Engineers Inc., 2021. (2021 IEEE Nuclear Science Symposium and Medical Imaging Conference Record, NSS/MIC 2021 and 28th International Symposium on Room-Temperature Semiconductor Detectors, RTSD 2022).

Research output: Chapter in Book/Report/Conference proceeding › Conference contribution › peer-review

TY - GEN

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AU - Twyman, Robert

AU - Brusaferri, Ludovica

AU - Emond, Elise C.

AU - Leek, Francesca

AU - Arridge, Simon

AU - Hutton, Brian F.

AU - Cuplov, Vesna

AU - Thielemans, Kris

PY - 2021/10/16

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N2 - We present the first open-source version of STIR-GATE-Connection, a project that aims to provide an easy-to-use pipeline to simulate realistic PET data using GATE, followed by quantitative reconstruction using STIR. Monte Carlo simulations and image reconstruction are powerful research tools for emission tomography that can assist with the design of new medical imaging devices as well as the evaluation of novel image reconstruction algorithms and various correction techniques. STIR-GATE-Connection is a collection of scripts that aid with the: (i) setup of a realistic GATE simulation of a voxelised phantom using a user selected scanner configuration, (ii) conversion of the output list mode data into STIR compatible sinograms, and (iii) computation of additive and multiplicative data corrections for Poisson image reconstruction using STIR. In this work, we demonstrate example usage of these steps. A public release of STIR-GATE-Connection, licensed under the Apache 2.0 License, can be downloaded at: http://www.github.com/UCL/STIR-GATE-Connection.

AB - We present the first open-source version of STIR-GATE-Connection, a project that aims to provide an easy-to-use pipeline to simulate realistic PET data using GATE, followed by quantitative reconstruction using STIR. Monte Carlo simulations and image reconstruction are powerful research tools for emission tomography that can assist with the design of new medical imaging devices as well as the evaluation of novel image reconstruction algorithms and various correction techniques. STIR-GATE-Connection is a collection of scripts that aid with the: (i) setup of a realistic GATE simulation of a voxelised phantom using a user selected scanner configuration, (ii) conversion of the output list mode data into STIR compatible sinograms, and (iii) computation of additive and multiplicative data corrections for Poisson image reconstruction using STIR. In this work, we demonstrate example usage of these steps. A public release of STIR-GATE-Connection, licensed under the Apache 2.0 License, can be downloaded at: http://www.github.com/UCL/STIR-GATE-Connection.

KW - data-correction

KW - image reconstruction

KW - Monte Carlo simulation

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U2 - 10.1109/nss/mic44867.2021.9875442

DO - 10.1109/nss/mic44867.2021.9875442

M3 - Conference contribution

T3 - 2021 IEEE Nuclear Science Symposium and Medical Imaging Conference Record, NSS/MIC 2021 and 28th International Symposium on Room-Temperature Semiconductor Detectors, RTSD 2022

BT - 2021 IEEE Nuclear Science Symposium and Medical Imaging Conference Record, NSS/MIC 2021 and 28th International Symposium on Room-Temperature Semiconductor Detectors, RTSD 2022

A2 - Tomita, Hideki

A2 - Nakamura, Tatsuya

PB - Institute of Electrical and Electronics Engineers Inc.

T2 - 2021 IEEE Nuclear Science Symposium and Medical Imaging Conference, NSS/MIC 2021

Y2 - 16 October 2021 through 23 October 2021

ER -

Twyman R, Brusaferri L, Emond EC, Leek F, Arridge S, Hutton BF et al. A Demonstration of STIR-GATE-Connection. In Tomita H, Nakamura T, editors, 2021 IEEE Nuclear Science Symposium and Medical Imaging Conference Record, NSS/MIC 2021 and 28th International Symposium on Room-Temperature Semiconductor Detectors, RTSD 2022. Institute of Electrical and Electronics Engineers Inc. 2021. (2021 IEEE Nuclear Science Symposium and Medical Imaging Conference Record, NSS/MIC 2021 and 28th International Symposium on Room-Temperature Semiconductor Detectors, RTSD 2022). doi: 10.1109/nss/mic44867.2021.9875442, 10.1109/NSS/MIC44867.2021.9875442

A Demonstration of STIR-GATE-Connection

Abstract

Publication series

Conference

Bibliographical note

Keywords

Access to Document

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