Monte Carlo Simulation for Biophotonic Research within MITK

Transcription

1 Monte Carlo Simulation for Biophotonic Research within MITK MITK Users Meeting 2016 April 26th, 2016 Janek Gröhl E131 Computer-Assisted Interventions German Cancer Research Center Heidelberg

2 Monte Carlo Simulation for Biophotonic Research within MITK 2

3 Context Photoacoustic Tomography 3 Reprinted modified : Annual Reviews, copyright (2014)

4 Recent work with MITK 3D Freehand Photoacoustic Tomography Optical tracking with NDI Polaris Using PLUS via OpenIGTLink for 3D reconstruction and calibration 4 März et al.: "Interventional real-time ultrasound imaging with an integrated electromagnetic field generator, Int J CARS 2014 März et al.: MITK-US: real-time ultrasound support within MITK, Int J CARS 2014 Franz AM, et al.: "EchoTrack For Simulataneous EMTracking And US Imaging: Initial Experience In Ventilated Swine Cadaver", CA Kirchner et al.: "Freehand photoacoustic tomography for 3D angiography using local gradient information SPIE Proc. 2016

5 Recent work with MITK 3D Freehand Photoacoustic Tomography 5 März et al.: "Interventional real-time ultrasound imaging with an integrated electromagnetic field generator, Int J CARS 2014 März et al.: MITK-US: real-time ultrasound support within MITK, Int J CARS 2014 Franz AM, et al.: "EchoTrack For Simulataneous EMTracking And US Imaging: Initial Experience In Ventilated Swine Cadaver", CA Kirchner et al.: "Freehand photoacoustic tomography for 3D angiography using local gradient information SPIE Proc. 2016

6 Recent work with MITK 3D Freehand Photoacoustic Tomography US Imaging 6 März et al.: "Interventional real-time ultrasound imaging with an integrated electromagnetic field generator, Int J CARS 2014 März et al.: MITK-US: real-time ultrasound support within MITK, Int J CARS 2014 Franz AM, et al.: "EchoTrack For Simulataneous EMTracking And US Imaging: Initial Experience In Ventilated Swine Cadaver", CA Kirchner et al.: "Freehand photoacoustic tomography for 3D angiography using local gradient information SPIE Proc. 2016

7 Recent work with MITK 3D Freehand Photoacoustic Tomography PAT Imaging 7 März et al.: "Interventional real-time ultrasound imaging with an integrated electromagnetic field generator, Int J CARS 2014 März et al.: MITK-US: real-time ultrasound support within MITK, Int J CARS 2014 Franz AM, et al.: "EchoTrack For Simulataneous EMTracking And US Imaging: Initial Experience In Ventilated Swine Cadaver", CA Kirchner et al.: "Freehand photoacoustic tomography for 3D angiography using local gradient information SPIE Proc. 2016

8 Recent work with MITK 3D Freehand Photoacoustic Tomography Combined 8 März et al.: "Interventional real-time ultrasound imaging with an integrated electromagnetic field generator, Int J CARS 2014 März et al.: MITK-US: real-time ultrasound support within MITK, Int J CARS 2014 Franz AM, et al.: "EchoTrack For Simulataneous EMTracking And US Imaging: Initial Experience In Ventilated Swine Cadaver", CA Kirchner et al.: "Freehand photoacoustic tomography for 3D angiography using local gradient information SPIE Proc. 2016

9 Monte Carlo Simulation for Biophotonic Research within MITK 9

10 Context Typical Workflow Biophotonic Research Photoacoustic Tomograpy Acquire Images Perform Postprocessing 10

11 Context Typical Workflow Biophotonic Research Photoacoustic Tomograpy Acquire Images Perform Postprocessing Get data with known ground truth Design Experiments Get data with known ground truth Evaluate Results Get data with known ground truth 11

12 Context Photoacoustic Signal Depends on Absorption Irradiance Temperature We actually measure a complex product 12

13 mcxyz.c One of the go-to Monte Carlo Simulations in Biophotonics Simulation of the distribution of light Complex tissue consisting of different optical properties 13 März et al.: "Interventional real-time ultrasound imaging with an integrated electromagnetic field generator, Int J CARS 2014 März et al.: MITK-US: real-time ultrasound support within MITK, Int J CARS 2014 Franz AM, et al.: "EchoTrack For Simulataneous EMTracking And US Imaging: Initial Experience In Ventilated Swine Cadaver", CA Jacques 2014: "Coupling 3D Monte Carlo light transport in optically heterogeneous tissues to photoacoustic signal generation Photoacoustics 2.4 (2014): Images from:

14 Mcxyz workflow 14 März et al.: "Interventional real-time ultrasound imaging with an integrated electromagnetic field generator, Int J CARS 2014 März et al.: MITK-US: real-time ultrasound support within MITK, Int J CARS 2014 Franz AM, et al.: "EchoTrack For Simulataneous EMTracking And US Imaging: Initial Experience In Ventilated Swine Cadaver", CA Jacques 2014: "Coupling 3D Monte Carlo light transport in optically heterogeneous tissues to photoacoustic signal generation Photoacoustics 2.4 (2014):

15 Mcxyz workflow Create Ground Truth Tissue Do MonteCarlo Simulation Look at Results Do postprocessing maketissue.m mcxyz.c lookmcxyz.m customscript.m 15

16 Mcxyz workflow Create Ground Truth Tissue Do MonteCarlo Simulation Look at Results Do postprocessing maketissue.m mcxyz.c lookmcxyz.m customscript.m naming naming naming lookmcxyz.m maketissue.m 16

17 Monte Carlo Simulation for Biophotonic Research within MITK 17

18 MITK solution Prone to errors We need a more convenient solution mcxyz.c MITK Ported to MITK Parallel Processing enabled Generate Ground Truth Data Perform Monte Carlo Simulation Look at results 18

19 GUI overview PhotoacousticSimulations MITK Volume Settings (x, y, z dimensions) 19

20 GUI overview PhotoacousticSimulations MITK Tissue Settings (number of vessels, ) 20

21 GUI overview PhotoacousticSimulations MITK Monte Carlo Simulation Options 21

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23 Exemplary Results Ground Truth Image Slices 23

24 Exemplary Results Monte Carlo Computed Fluence Values 24

25 Wrap Up MitkPhotoacousticSimulation : Generation of Ground Truth Volume Data Performing of PAT Monte Carlo Simulations Visualization of Results Postprocessing via MITK However: still work in progress Tissue Generation with only Vessels + Background Tissues Will be available in the next release 25

26 Acknowledgements Orga Team Lena Maier-Hein Thomas Kirchner CAI group MITK group