species and speciesEcoregion tablesR/maxBestimation.R
modifySpeciesAndSpeciesEcoregionTable.RdUpdate species and speciesEcoregion tables
modifySpeciesAndSpeciesEcoregionTable(speciesEcoregion, speciesTable)A data.table with species-ecoregion-specific species trait values.
Ecoregion refers to "ecolocation", a categorical variable grouping sites with similar biophysical
characteristics. The table should have at least the following columns: speciesCode and
ecoregionGroup, character representation of species and ecoregion groups respectively,
maxB the maximum biomass for the species in a given 'ecoregion', maxANPP the maximum
aboveground net primary productivity and SEP the species establishment probability.
May contain columns inflationFactor (used to adjust maxB) and mANPPproportion
(used to calculate maxANPP).
A species traits table, with at least the following columns:
speciesCode an character representation of species;
Area a character of geographical area within a species range for which trait values are relevant;
longevity species longevity in years, sexualmature age in years at sexual maturity;
shadetolerance numeric value between 1-5 of relative shade tolerance (with respect to other species);
seeddistance_eff the "effective" seed dispersal distance;
seeddistance_max a numeric with the maximum seed dispersal distance;
mortalityshape and growthcurve: growth curve shape parameters.
Other columns (e.g. fire-related traits) can also be included depending on LandR modules in use.
Please see the LANDIS-II Biomass Succession Extension v3.2.1 manual (Scheller and Miranda 2015)
for further detail.
a list with modified speciesEcoregion and speciesTable,
under the names "newSpeciesEcoregion" and "newSpeciesTable", respectively.