Tools for the Analysis of Ecosystem Metabolism
Estimate net long wave heat radiation
Estimate sensible and latent heat fluxes
gets surface water temperatures
subsets data.frame according to header names
Returns Schmidt number for a specific gas at a given temperature
tests data.frame for column names
determines if measurement was taken during the daytime
determines if measurement was taken during the night
Returns a timeseries of gas exchange velocity
Returns a timeseries of gas exchange velocity
Returns the gas exchange velocity for gas of interest w/ no unit conve...
Attemps to load and merge all timeseries data for a given site name
Loads a metadata file from the specified path
Metabolism model based on a bayesian parameter estimation framework
Metabolism model based on simple day/night summation NEP-interpreted c...
Metabolism calculated from parameters estimated using a Kalman filter
Metabolism calculated from the maximum likelihood estimates of the par...
Metabolism model based on a ordinary least squares parameter estimatio...
Calculate metabolism
Calculates the equilibrium saturation concentration of oxygen in water...
Convert PAR to shortwave
subsets data.frame according to header names
Calculates the time of sunrise and sunset
Convert shortwave radiation to PAR
Smooth temperature time series using a Kalman filter/ smoother
finds matching column names in data.frame
Simple estimate of energy gained by a layer of water
Wind Scaling U10 - exponential conversion to 10m wind speed
A collection of tools for the calculation of freewater metabolism from in situ time series of dissolved oxygen, water temperature, and, optionally, additional environmental variables. LakeMetabolizer implements 5 different metabolism models with diverse statistical underpinnings: bookkeeping, ordinary least squares, maximum likelihood, Kalman filter, and Bayesian. Each of these 5 metabolism models can be combined with 1 of 7 models for computing the coefficient of gas exchange across the air–water interface (k). LakeMetabolizer also features a variety of supporting functions that compute conversions and implement calculations commonly applied to raw data prior to estimating metabolism (e.g., oxygen saturation and optical conversion models).
Useful links