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amber (version 1.0.3)

Automated Model Benchmarking R Package

Description

Functions that quantify how well the Canadian Land Surface Scheme Including Biogeochemical Cycles (CLASSIC) reproduces land surface processes when compared against reference data. To summarize model performance across different statistical metrics, this package employs a skill score system that was originally developed by Collier et. al., (2018) .

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Version

Install

install.packages('amber')

Monthly Downloads

13

Version

1.0.3

License

GPL-3

Maintainer

Christian Seiler

Last Published

August 28th, 2020

Functions in amber (1.0.3)

globalSumsTable

Table of globally summed values and corresponding biases.

correlationMatrixDiff

Plot a matrix that shows the difference between two correlation coefficient matrices computed by correlationMatrix.

Overview of AMBER functions

correlationMatrixFluxnet

Correlation matrix for statistical metrics computed by AMBER for FLUXNET data

correlationMatrix

Correlation matrix for statistical metrics computed by AMBER

Reproject coastline

intFun.anom.mly

Monthly anomalies

intFun.addBWtext

Add text to raster

Centralized root mean square error (CRMSE)

intFun.min.max.int

Range and interval for color bar legend

intFun.grid.define.outlier

Upper and lower threshold values that define outliers

intFun.min.max.int.bias

Range and interval for color bar legend (bias)

metrics.compare

Compares global mean statistical meterics for multiple model runs

intFun.sampleGridTime

Random sampling of gridded reference data along time axis

plotFluxnetStats

Plots that show statistical metrics for FLUXNET sites

plotEnsembleMean

Ensemble mean plots of AMBER results (bias, bias scores, etc)

intFun.sampleDataFrame

random sampling across space and time for a data frame (FLUXNET and runoff).

Time distance in months

intFun.rel.error

Relative error used for binned data

Root mean square error (RMSE)

Inter-annual variability

intFun.isRaster

Reproject coastline

intFun.grid.outliers.points

Convert outliers to spatial points

seasonalCycleIrreg

Zonal mean plots of model and reference data on an irregular grid

Zonal mean plots of model and reference data

Replace NA with zero in raster object

Plot Hovmoeller diagrams that show monthly climatological mean values and biases

Summarize results in a table and a plot

Plot zonal mean values of model and reference data in a single figure

scores.site.notime

Scores for site-level reference data that do not vary in time

plotZonalMeanStats

Plot zonal mean plots of AMBER results (bias, bias scores, etc)

Plots raster layers of a raster stack object

intFun.min.max.int.raw

Range and interval for color bar legend

intFun.grid.outliers.na

Set all values outside a range to NA

intFun.min.max.int.mod.ref

Range and interval for color bar legend for two raster objects

intFun.sampleGridTimeAndSpace

random sampling across space and time (if available) for reference grid data

Barplots of reference and model data with same unit

intFun.grid.significance

Set significant differences to NA

intFun.grid.phase

Time distance in months

scores.fluxnet.nc

Scores for FLUXNET reference data in NetCDF format

plotEnsembleHovmoeller

Hovmoeller Diagram for model ensemble

scores.fluxnet.site

Scores for FLUXNET reference data when model run at FLUXNET site

intFun.site.points

Make spatial points

scores.compare.ensemble

Summarize scores from multiple model runs in single figure.

intFun.min.max.int.diff

Range and interval for color bar legend (difference)

intFun.grid.wilcox

Wilcox significance test

intFun.min.max.int.ext

Range and interval for color bar legend

Compares scores from two model runs

scores.compare.benchmarks

Compares model scores against scores reference scores.

Plots the time-mean of a variable stored in NetCDF model output on a regular grid

scores.fluxnet.csv

Scores for FLUXNET reference data in CSV format

Zonal mean plots of model and reference data

scores.tables.tweak

Tweak summary table

scores.grid.time

Scores for gridded reference data with a varying time dimension

Zonal mean plots of AMBER results (bias, bias scores, etc)

Zonal mean plots of model and reference data on an irregular grid

Scores for runoff

scores.functional.response

Response of a variable to its forcing

Plots the time-mean of a variable stored in NetCDF model output on an irregular grid

scores.grid.notime

Scores for gridded reference data that do not have a varying time dimension