CTFS-formated data preparation.

Main routine to format, detect major obvious errors, and gap-fill those errors in CTFS-formated data.

data_preparation(site, stem, WD = NULL, taper_correction, fill_missing,
  use_palm_allometry, flag_strangler, dbh_stranglers, maxrel,
  output_errors, DATA_path = NULL, exclude_interval = NULL)

Arguments

site	The full name of your site (in lower case); e.g., 'barro colorado island'.
stem	TRUE or FALSE, using the stem data (stem = TRUE) rather than the tree data (i.e. called 'full', stem = FALSE).
taper_correction	TRUE or FALSE, apply Cushman et al (2014) taper correction.
fill_missing	TRUE or FALSE, interpolate missing DBH values.
use_palm_allometry	TRUE or FALSE, if TRUE, compute biomass of palm trees using a palm-specific allometric model from Goodman et al. (2013).
dbh_stranglers	(optional) Minimal diameter (in mm) of strangler figs, default = 500.
maxrel	A numeric value: the threshold for flagging major errors in productivity, applied as absval(individual-tree-productivity) > maxrel * (average-productivity-per-hectare).
output_errors	TRUE or FALSE, output all records for trees with major errors in productivity to a csv file.
DATA_path	The pathname where the data are located.
exclude_interval	NULL by default. If needed a vector (e.g. c(1,2)) indicating which census interval(s) must be discarded from computation due, for instance, to a change in measurement protocol.
flag_stranglers	TRUE or FALSE, individuals of known strangler fig species greater than 'dbh_stranglers' are flagged

Value

A data.table (data.frame) with all relevant variables.

Examples

# NOT RUN {
data_preparation(
  site = "barro colorado island",
  stem = TRUE,
  taper_correction = TRUE,
  fill_missing = TRUE,
  use_palm_allometry = TRUE,
  flag_strangler = TRUE,
  dbh_stranglers = 500,
  maxrel = 0.2,
  output_errors = TRUE,
  DATA_path = NULL,
  exclude_interval = NULL
)
# }