An efficient procedure for custom beam-profile convolution in polar coordinates: testing, benchmarking and application to biophotonics. (2nd February 2018)

• Record Type: Journal Article
• Authors: Melchert, O; Wollweber, M; Roth, B
• Is Part Of: Biomedical physics & engineering express. Volume 4:Number 2(2018)
• Publication Date: 2018-02-02
• Subjects: computational biophotonics -- beam-profile convolution -- discrete Fourier–Bessel transform -- python -- unit testing -- tissue optics -- photoacoustics; 02.70.-c -- 02.30.Mv -- 87.64.Aa; Medical physics -- Periodicals; Biophysics -- Periodicals; Biomedical engineering -- Periodicals; Medical sciences -- Periodicals; 610.153
• DOI: 10.1088/2057-1976/aaa51a
• Languages: English
• ISSNs: 2057-1976

Abstract

Abstract: We discuss efficient algorithms for the accurate forward and reverse evaluation of the discrete Fourier–Bessel transform as numerical tools to assist in the 2D polar convolution of two radially symmetric functions, relevant, e.g., to applications in computational biophotonics. In our survey of the numerical procedure we account for the circumstance that the objective function might result from a more complex measurement process and is, in the worst case, known on a finite sequence of coordinate values, only. We contrast the performance of the resulting algorithms with a procedure based on a straight forward numerical quadrature of the underlying integral transform and asses its efficienty for two benchmark Fourier–Bessel pairs. Application to the problems of finite-size beam-shape convolution in polar coordinates and prediction of photoacoustic transients observed in experiments are used to illustrate the versatility and computational efficiency of the numerical procedure. Further, we address the important issue of testing research code written in thepython scripting language by using its off-the-shelf unit testing libraryunittest .