apical: Function to calculate series of apical(=height) growth of a...
In jantumajer/IncrementR: Analysing tree height growth in R

Description Usage Arguments Value Author(s) Examples

apical function creates datasets storing total number of tree-rings (measured + missing tree-rings nearby the pith) for individual levels along the stem. If discrepancies in estimated number of tree-rings exist between individual cores coming from the same level and none of the cores includes the pith, median of estimated number of tree-rings is assigned for entire level.

1	apical(trw.series, meta, mr.estimate)

`trw.series`	a dataframe with tree-ring width series as columns and years as rows such as that produced by read.rwl from dplR package
`meta`

a dataframe with two columns. The first column (ID) identifies individual trees and coring levels. The other column (Level_cm) contains the distances between stem base and individual coring positions.

mr.estimate

a dataframe containing estimated number of missing tree-rings of individual cores such as that produced by EMR

`N.ring_Core`	dataframe storing number of measured and estimated missing tree-rings for each core
`N.ring_Level`	dataframe storing estimated number of total rings for each sampling level

Jan Tumajer, Charles University, Faculty of Science, Department of Physical Geography and Geoecology, Prague, Czech Republic

data(IncrementR_data)
  missing.rings <- EMR(trw.series = trw, p.off = po, nyrs = 5, method = "Both")
    # estimate of the number of tree-rings nearby the pith, which were missed by the core
  
  apical.growth <- apical(trw.series = trw, meta = meta, mr.estimate = missing.rings)
    # builds datframe with the total number of tree-rings (measured+missing) in individual coring levels 
  
  drawApicalData(trw.series = trw, apicalData = apical.series, plot = 8, tree = 2)
    # plots the graph of apical growth