Extract trait data from database — query.trait.data • PEcAn.DB

Extracts data from database for a given trait and set of species, converts all statistics to summary statistics, and prepares a dataframe for use in meta-analysis. For Vcmax and SLA data, only data collected between April and July are queried, and only data collected from the top of the canopy (canopy height > 0.66). For Vcmax and root_respiration_rate, data are scaled converted from measurement temperature to \(25^oC\) via the arrhenius equation.

query.trait.data(
  trait,
  spstr,
  con = NULL,
  update.check.only = FALSE,
  ids_are_cultivars = FALSE,
  ...
)

Arguments

trait: is the trait name used in the database, stored in variables.name
spstr: is the species.id integer or string of integers associated with the species
con: database connection object
update.check.only: if TRUE, returns results but does not print summaries
ids_are_cultivars: if TRUE, the IDs in spstr are cultivar IDs, otherwise they are species IDs. Passed on to query.data
...: unused currently

Value

dataframe ready for use in meta-analysis

Author

David LeBauer, Carl Davidson, Shawn Serbin

Examples

if (FALSE) { # \dontrun{
settings <- read.settings()
query.trait.data("Vcmax", "938", con = con)
} # }