Tools for the Analysis of Ecosystem Metabolism

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Documentation for package ‘LakeMetabolizer’ version 1.5.5

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calc.lw.net Estimate net long wave heat radiation
calc.lw.net.base Estimate net long wave heat radiation
calc.zeng Estimate sensible and latent heat fluxes
get.Ts gets surface water temperatures
get.vars subsets data.frame according to header names
getSchmidt Returns Schmidt number for a specific gas at a given temperature
has.vars tests data.frame for column names
is.day determines if measurement was taken during the daytime
is.night determines if measurement was taken during the night
k.cole Returns a timeseries of gas exchange velocity
k.cole.base Returns a timeseries of gas exchange velocity
k.crusius Returns a timeseries of gas exchange velocity
k.crusius.base Returns a timeseries of gas exchange velocity
k.heiskanen Returns a timeseries of gas exchange velocity
k.heiskanen.base Returns a timeseries of gas exchange velocity
k.macIntyre Returns a timeseries of gas exchange velocity
k.macIntyre.base Returns a timeseries of gas exchange velocity
k.read Returns a timeseries of gas exchange velocity
k.read.base Returns a timeseries of gas exchange velocity
k.read.soloviev Returns a timeseries of gas exchange velocity
k.read.soloviev.base Returns a timeseries of gas exchange velocity
k.vachon Returns a timeseries of gas exchange velocity
k.vachon.base Returns a timeseries of gas exchange velocity
k600.2.kGAS Returns the gas exchange velocity for gas of interest w/ no unit conversions
k600.2.kGAS.base Returns the gas exchange velocity for gas of interest w/ no unit conversions
load.all.data Attemps to load and merge all timeseries data for a given site name
load.meta Loads a metadata file from the specified path
metab Calculate metabolism
metab.bayesian Metabolism model based on a bayesian parameter estimation framework
metab.bookkeep Metabolism model based on simple day/night summation NEP-interpreted changes in DO.
metab.kalman Metabolism calculated from parameters estimated using a Kalman filter
metab.mle Metabolism calculated from the maximum likelihood estimates of the parameters in a standard linear regression model
metab.ols Metabolism model based on a ordinary least squares parameter estimation framework.
o2.at.sat Calculates the equilibrium saturation concentration of oxygen in water at the supplied conditions
o2.at.sat.base Calculates the equilibrium saturation concentration of oxygen in water at the supplied conditions
par.to.sw Convert PAR to shortwave
par.to.sw.base Convert PAR to shortwave
rmv.vars subsets data.frame according to header names
sun.rise.set Calculates the time of sunrise and sunset
sw.to.par Convert shortwave radiation to PAR
sw.to.par.base Convert shortwave radiation to PAR
temp.kalman Smooth temperature time series using a Kalman filter/ smoother
var.indx finds matching column names in data.frame
watts.in Simple estimate of energy gained by a layer of water
wind.scale Wind Scaling U10 - exponential conversion to 10m wind speed
wind.scale.base Wind Scaling U10 - exponential conversion to 10m wind speed