TY - GEN
T1 - Pipeline for the removal of hardware related artifacts and background noise for Raman spectroscopy
AU - Bertens, Christian J. F.
AU - Zhang, Shuo
AU - Erckens, Roel J.
AU - van den Biggelaar, Frank J. H. M.
AU - Berendschot, Tos T. J. M.
AU - Webers, Carroll A. B.
AU - Nuijts, Rudy M. M. A.
AU - Gijs, Marlies
PY - 2020
Y1 - 2020
N2 - Raman spectroscopy is a real-time, non-contact, and non-destructive technique able to obtain information about the composition of materials, chemicals, and mixtures. It uses the energy transfer properties of molecules to detect the composition of matter. Raman spectroscopy is mainly used in the chemical field because background fluorescence and instrumental noise affect biological (in vitro and in vivo) measurements. In this method, we describe how hardware related artifacts and fluorescence background can be corrected without affecting signal of the measurement. First, we applied manual correction for cosmic ray spikes, followed by automated correction to reduce fluorescence and hardware related artifacts based on a partial 5
th degree polynomial fitting and Tophat correction. Along with this manuscript we provide a MatLab
Ⓡ script for the automated correction of Raman spectra. • “Polynomial_Tophat_background_subtraction _methods.m” offers an automated method for the removal of hardware related artifacts and fluorescence signals in Raman spectra. • “Polynomial_Tophat_background_subtraction _methods.m” provides a modifiable MatLab file adjustable for multipurpose spectroscopy analysis. • We offer a standardized method for Raman spectra processing suitable for biological and chemical applications for modular confocal Raman spectroscopes.
AB - Raman spectroscopy is a real-time, non-contact, and non-destructive technique able to obtain information about the composition of materials, chemicals, and mixtures. It uses the energy transfer properties of molecules to detect the composition of matter. Raman spectroscopy is mainly used in the chemical field because background fluorescence and instrumental noise affect biological (in vitro and in vivo) measurements. In this method, we describe how hardware related artifacts and fluorescence background can be corrected without affecting signal of the measurement. First, we applied manual correction for cosmic ray spikes, followed by automated correction to reduce fluorescence and hardware related artifacts based on a partial 5
th degree polynomial fitting and Tophat correction. Along with this manuscript we provide a MatLab
Ⓡ script for the automated correction of Raman spectra. • “Polynomial_Tophat_background_subtraction _methods.m” offers an automated method for the removal of hardware related artifacts and fluorescence signals in Raman spectra. • “Polynomial_Tophat_background_subtraction _methods.m” provides a modifiable MatLab file adjustable for multipurpose spectroscopy analysis. • We offer a standardized method for Raman spectra processing suitable for biological and chemical applications for modular confocal Raman spectroscopes.
KW - Raman spectroscopy
KW - Ketorolac tromethamine
KW - Data processing
KW - Rabbits
KW - Ophthalmology
UR - http://www.scopus.com/inward/record.url?scp=85083859333&partnerID=8YFLogxK
U2 - 10.1016/j.mex.2020.100883
DO - 10.1016/j.mex.2020.100883
M3 - Other contribution
C2 - 32382520
VL - 7
T3 - MethodsX
ER -