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R package 'photobiologyWavebands'

Package 'photobiologyWavebands' is a set of functions and data to be used together with package 'photobiology' for calculating derived quantities from spectral data. Non-weighed derived quantities represent summaries of a given range of wavelengths, which can be expressed either in energy or photon based units. All constructors default to ISO standardized definitions when they are available, but other competing definitions are available. These additional definitions include the wavelengths ranges used by Landsat satellite imagers, as these may be needed to approximate remote-sensing-related index calculations on spectral data.

Derived biologically effective quantities are used to quantify the effect of radiation on different organisms or processes within organisms. These effects can range from damage to perception of informational light signals. Except for the definition of the erythemal and vitamin-D spectra for which CIE definitions exist, those which we consider the most frequently used formulations are used as default. Weighting functions included in the package are the luminous efficiency functions for human vision and several biological spectral weighting functions (BSWFs) used to estimate effective UV doses.

The definitions cover most non-weighted wavebands in common use, and in addition many weighting functions used in the calculation of effective irradiances and exposures. The current version of the package puts emphasis, in the case of weighting functions, on a subset of those in use, but in the future the package will be expanded to included responses relevant to additional groups of organisms. Colour-response and colour-matching functions for human vision and bee vision are included in package 'photobiology'.

Please, see the web site r4photobiology for details on other packages available as part of the suite, and on how to install them.

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Version

Install

install.packages('photobiologyWavebands')

Monthly Downloads

312

Version

0.4.3

License

GPL (>= 2)

Maintainer

Pedro Aphalo

Last Published

March 28th, 2019

Functions in photobiologyWavebands (0.4.3)

CH4_e_fun

Gives values for the CH4 production from pectin BSWF as a function of wavelength
DNA.GM

Constructor of DNA damage (SETLOW) weighted waveband
CH4

Constructor of CH4 production from pectin weighted waveband
CH4_q_fun

Gives values for the CH4 production from pectin BSWF as a function of wavelength
DNA_GM_q_fun

Gives values for naked DNA BSWF (SETLOW) as a function of wavelength
CIE1924_lef.spct

CIE1924 luminous efficiency function (photopic human vision)
DNA_P_q_fun

Gives values for plant DNA BSWF (Quaite) as a function of wavelength
DNA_N_q_fun

Gives values for naked DNA BSWF (SETLOW) as a function of wavelength
CIE2008_lef2deg.spct

CIE2008 luminous efficiency function (2-deg) (photopic human vision)
CIE1951_scotopic_lef.spct

Luminous efficiency function (scotopic human vision)
DNA_N

Constructor of DNA damage (SETLOW) weighted waveband
FLAV

Constructor of FLAV BSWF flavonoids
FLAV_q_fun

Gives values for FLAV BSWF (flavonoid) as a function of wavelength
DNA.N

Constructor of DNA damage (SETLOW) weighted waveband
Far_red

Constructor of FR waveband
ICNIRP

Constructor of ICNIRP 2004 weighted waveband
GEN.G

Constructor of GPAS (Green) weighted waveband
GEN.M

Constructor of GPAS (Micheletti) weighted waveband
CIE_e_fun

Gives values for the erythemal BSWF as a function of wavelength
Landsat_bands

Constructor of lists of wavebands matching Landsat imagers
Orange

Constructor of orange waveband
CIE_q_fun

Gives values for the erythemal BSWF as a function of wavelength
PAR

Constructor of PAR waveband
DNA.P

Constructor of DNA damage (Quaite) weighted waveband
DNA_GM

Constructor of DNA damage (SETLOW) weighted waveband
GEN.T

Constructor of GPAS (Timijan) weighted waveband
DNA_P

Constructor of DNA damage (Quaite) weighted waveband
GEN_G

Constructor of GPAS (Green) weighted waveband
GEN_M_q_fun

Gives values for GPAS BSWF (Micheletti's formulation) as a function of wavelength
UVC

Constructor of UV-C waveband
ICNIRP_e_fun

Values for the ICNIRP BSWF as a function of wavelength
IR

Constructors of infra-red wavebands
UVI

Calculate UVI from spectral irradiance
IR_bands

Constructor of lists of infrared wavebands
PG

Constructor of PG weighted waveband
GEN_T

Constructor of GPAS (Timijan) weighted waveband
GEN_T_q_fun

Gives values for GPAS BSWF (Timijan's formulation) as a function of wavelength
VIS

Constructor of VIS waveband
photopic_sensitivity

Photopic sensitivity of the human eye
UVA

Constructor of UV-A waveband
SetlowTUV.spct

Setlow's action spectrum for DNA damage
UVB

Constructor of UV-B waveband
Green

Constructor of green waveband
scotopic_sensitivity

Scotopic sensitivity of the human eye
UV

Constructor of UV waveband
VIS_bands

Contructor of lists of VIS wavebands
PG_q_fun

Gives values for the Plant Growth BSWF as a function of wavelength
GEN_G_q_fun

Gives values for GPAS BSWF (Green's formulation) as a function of wavelength
Plant_bands

Constructor of lists of wavebands used in plant biology
Yellow

Constructor of yellow waveband
photobiologyWavebands-package

photobiologyWavebands: Waveband Definitions for UV, VIS, and IR Radiation
GEN_M

Constructor of GPAS (Micheletti) weighted waveband
Purple

Constructor of purple waveband
Red

Constructor of red waveband
UV_bands

Constructor of lists of UV wavebands
UVI_wb

Constructor of CIE weighted waveband
CIE

Constructor of CIE weighted waveband
Blue

Constructor of blue waveband