z466chen/hmc-grt

Hybrid Monte Carlo simulation with geometrical ray tracing for tissue fluorescence model

Hybrid Monte Carlo simulation with geometrical ray tracing (hMC-GRT)

Objective of this Monte Carlo code is to simluate fluorescence emission and propagation in turbid media like biological tissues. In particular, the code is compatible with a commerical ray tracing software, ZEMAX (Currently, OpticsStudio). When combined with ZEMAX ray-tracing non-sequential mode, one can model a full path of excitation beam propagation, and fluorescence emission and detection through optics system (ZEMAX) and biological tissue sample (mlmf-trMC).

The MC code has been modified from the original code written by Karthik Vishwanath, which was created to model a fluorescent lifetime in a multi-layred turbid media containing multi-fluorophores. The modified code here has been verified against the standard MC code and their application has been showcased in assessing the performance of a depth-resolved fluorescence spectroscopy. Further detailed explanation about how the code works and their verification results are reported in the manuscript "Hybrid Ray-traced Monte Carlo Simulation with Ray Tracing for Fluorescence Measurements in Turbid Media", which will be available once published.

Whenever this combined method called Hybrid Monte Carlo simulation with geometrical ray tracing (hMC-GRT), please cite papers below.

1. K. Vishwanath, B. W. Pogue, and M.-A. Mycek, "Quantitative fluorescence lifetime spectroscopy in turbid media: comparison of theoretical, experimental and computational methods," Physics in Medicine and Biology 47, 3387-3405 (2002).

2. K. Vishwanath and M.-A. Mycek, "Time-resolved photon migration in bi-layered tissue models," Opt. Express 13, 7466-7482 (2005)

3. S.Y. Lee and M.-A. Mycek, "Hybrid Ray-traced Monte Carlo simulation with ray tracing for fluorescence measurements in turbid media", submitted to journal

Questions and comments can be submitted to Paul (Seung Yup) Lee ([email protected])