photobiologyWavebands v0.4.2

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Waveband Definitions for UV, VIS, and IR Radiation

Constructors of waveband objects for commonly used biological spectral weighting functions (BSWFs) and for different wavebands describing named ranges of wavelengths in the ultraviolet (UV), visible (VIS) and infrared (IR) regions of the electromagnetic spectrum.

Readme

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.

Functions in photobiologyWavebands

Name Description
Blue Constructor of blue waveband
GEN_T Constructor of GPAS (Timijan) weighted waveband
DNA_P Constructor of DNA damage (Quaite) weighted waveband
GEN_T_q_fun Gives values for GPAS BSWF (Timijan's formulation) as a function of
Purple Constructor of purple waveband
photopic_sensitivity Photopic sensitivity of the human eye
CH4_e_fun Gives values for the CH4 production from pectin BSWF as a function of wavelength
CH4_q_fun Gives values for the CH4 production from pectin BSWF as a function of wavelength
DNA_N_q_fun Gives values for naked DNA BSWF (SETLOW) as a function of wavelength
GEN_M_q_fun Gives values for GPAS BSWF (Micheletti's formulation) as a function of
Green Constructor of green waveband
Red Constructor of red waveband
scotopic_sensitivity Scotopic sensitivity of the human eye
Landsat_bands Constructor of lists of wavebands matching Landsat imagers
GEN.M Constructor of GPAS (Micheletti) weighted waveband
GEN.G Constructor of GPAS (Green) weighted waveband
FLAV Constructor of FLAV BSWF flavonoids
DNA_P_q_fun Gives values for plant DNA BSWF (Quaite) as a function of wavelength
UVA Constructor of UV-A waveband
UVB Constructor of UV-B waveband
UVI_wb Constructor of CIE weighted waveband
Orange Constructor of orange waveband
UV_bands Constructor of lists of UV wavebands
CIE1951_scotopic_lef.spct Luminous efficiency function (scotopic human vision)
DNA_N Constructor of DNA damage (SETLOW) weighted waveband
DNA_GM_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)
PAR Constructor of PAR waveband
PG Constructor of PG weighted waveband
FLAV_q_fun Gives values for FLAV BSWF (flavonoid) as a function of wavelength
Far_red Constructor of FR waveband
SetlowTUV.spct Setlow's action spectrum for DNA damage
UV Constructor of UV waveband
VIS Constructor of VIS waveband
VIS_bands Contructor of lists of VIS wavebands
DNA.N Constructor of DNA damage (SETLOW) weighted waveband
CIE1924_lef.spct CIE1924 luminous efficiency function (photopic human vision)
CIE_e_fun Gives values for the erythemal BSWF as a function of wavelength
GEN_G Constructor of GPAS (Green) weighted waveband
GEN.T Constructor of GPAS (Timijan) weighted waveband
UVC Constructor of UV-C waveband
ICNIRP Constructor of ICNIRP 2004 weighted waveband
Yellow Constructor of yellow waveband
UVI Calculate UVI from spectral irradiance
CIE_q_fun Gives values for the erythemal BSWF as a function of wavelength
ICNIRP_e_fun Values for the ICNIRP BSWF as a function of wavelength
photobiologyWavebands-package photobiologyWavebands: Waveband Definitions for UV, VIS, and IR Radiation
DNA.P Constructor of DNA damage (Quaite) weighted waveband
PG_q_fun Gives values for the Plant Growth BSWF as a function of wavelength
Plant_bands Constructor of lists of wavebands used in plant biology
DNA_GM Constructor of DNA damage (SETLOW) weighted waveband
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Vignettes of photobiologyWavebands

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user-guide.Rmd
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Details

Type Package
Date 2017-03-19
License GPL (>= 2)
VignetteBuilder knitr
LazyLoad yes
LazyData yes
ByteCompile true
Encoding UTF-8
URL http://www.r4photobiology.info/, https://bitbucket.org/aphalo/photobiologywavebands
BugReports https://bitbucket.org/aphalo/photobiologywavebands/issues
RoxygenNote 6.0.1
NeedsCompilation no
Packaged 2017-03-20 04:23:25 UTC; aphalo
Repository CRAN
Date/Publication 2017-03-20 05:22:20 UTC

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