Package index

Package overview

photobiologyPlants photobiologyPlants-package

photobiologyPlants: Plant Photobiology Related Functions and Data

Photon ratios

Convenience functions for calculation of photon ratios between pairs of regions of the UV and VIS light spectrum.

R_FR() FR_ePAR() FR_PAR() FR_RpFR() R_RpFR() B_G() UVB_UV() UVB_UVA() UVA_UV() UVAlw_UV() UVAsw_UV() UV_PAR() UVB_PAR() UVA_PAR() UVA1_UV() UVA2_UV() UVA2_UVA() UVA1_UVA()

Calculate photon ratios from spectral irradiance

Photon irradiances

Convenience functions for calculation of photon irradiances.

xPAR_irrad()

Constrained extended PAR from spectral irradiance

Phytochromes

Data and functions related to the plant photoreceptors phytochromes which mediate responses to red and far-red ligth.

Pfr_Ptot()

Calculate phytochrome photoequilibrium

Pfr_Ptot_R_FR()

Pr:Ptot ratio (photoequilibrium) from R:FR photon ratio.

Phy_Sigma()

Phytochrome Sigma as a function of wavelength

Phy_Sigma_R()

Pr Sigma as a function of wavelength

Phy_Sigma_FR()

Pfr Sigma as a function of wavelength

Phy_reaction_rates()

Phytochrome reaction rates

PHYs.mspct

Tabulated data for Phytochrome Sigma

Cryptochromes

Data sets related to the plant photoreceptors cryptochromes which mediate responses to UVA, blue and green radiation.

CRYs.mspct

CRY1, CRY2 and CRY3 absorbance spectra.

Phototropins

Data sets related to the plant photoreceptors phototropins which mediate responses to UVA and blue radiation.

PHOTs.mspct

PHOT1 and PHOT2 absorbance spectra.

UVR8

Data sets related to the plant photoreceptors UVR8 which mediate responses to UVB radiation.

UVR8s.mspct

UVR8 absorbance spectrum

Zeitlupe

Data sets related to the plant photoreceptors in the zeitlupe family which mediate responses to blue radiation.

ZTLs.mspct

ZTL absorbance spectra.

Chlorophylls

Data sets related to the plant photoreceptors UVR8 which mediate responses to UVB radiation.

chlorophylls.mspct

Absorbance spectra for chlorophylls.

chlorophylls_fluorescence.mspct

Fluorescence emission spectra for chlorophylls.

Carotenoids

Data sets related to the plant photoreceptors UVR8 which mediate responses to UVB radiation.

carotenoids.mspct

Absorbance spectra for carotenoids.

Photosynthesis

Data sets related to carbon fixation through photosynthesis in plants.

McCree_photosynthesis.mspct

McCree's action spectra for whole-leaf photosynthesis.

Optical properties of plants

Data sets with reflectance, transmittance and absorptance for plants and their organs.

Solidago_altissima.mspct

Spectral optical data for 'Solidago altissima' leaves

Betula_ermanii.mspct

Spectral data for 'Betula ermanii' leaves

Fluorescence of leaves

Data sets with fluorescence spectra of intact leaves.

leaf_fluorescence.mspct

Fluorescence emission spectra of leaves.

Energy and water balances

Computations related to water vapour in air, and energy, water vapour and carbon dioxide exchange between vegetation and the atmosphere.

water_vp_sat() water_dp() water_fp() water_vp2mvc() water_mvc2vp() water_vp2RH() water_RH2vp() water_vp_sat_slope() psychrometric_constant()

Water vapour pressure

ET_ref() ET_ref_day()

Evapotranspiration

net_irradiance()

Net radiation flux

D_water() D_CO2()

Diffusion coefficients in air

gs_c_from_gs_w() gs_w_from_gs_c() gs_vol2mol() gs_mol2vol()

Convert stomatal conductance

rs_from_size() gs_from_size() gs_w_from_size() gs_c_from_size()

Stomatal conductance from sizes and density

molar_vol()

Molar volume of an ideal gas