The ISETfluorescence toolbox provides a set of functions to simulate scenes with fluorescent components. Here, we extend the open-source and freely available tools in Image Systems Engineering Toolbox for cameras (ISETCam). The toolbox also implements several reflectance and fluorescence separation and estimation algorithms.
If you use this code in your work, please cite
Simultaneous Surface Reflectance and Fluorescence Spectra Estimation (2020)).
Henryk Blasinski, Joyce Farrell, and Brian Wandell
Arxiv
We also used this code for
Simulations of fluorescence imaging in the oral cavity
Zheng Lyu, Haomiao Jiang, Feng Xiao, Jian Rong, Tingcheng Zhang, Brian Wandell, Joyce Farrell
Biomedical Optics Express, 12 (7), 4276—4292
The code is provided as is. You are free to use and modify the code in non-commercial and research applications. If you are interested in commercial applications, please contact us as the method and apparatus is a subject of a US Patent 20,160,116,410.
- Dependencies (required)
a. Image Systems Engineering Toolbox ISETCam.
b. cvx Convex Optimization toolbox for Matlab.
- Dependencies (optional)
The following code is used by some data plotting scripts and are not required to simulate or analyze reflectance and fluorescence.
a. Barwitherr function from Matlab File exchange. b. Code accompanying the Computational Colour Science using Matlab from Matlab File exchange
- Sample data
The sample inputs to our algorithms as well as the results of the analyses can be downloaded from Stanford's Digital Repository:
http://purl.stanford.edu/xc528jd5098
The zip file downloaded from the above side contains two directories: 'data' with raw input data from real captures and simulations and 'results' storing algorithm outputs. Please place these two folders directly in the fiToolbox root folder.