outbreak: Composite defoliation series to determine outbreak events

In chguiterman/bugr: Detection and Analysis of Insect Defoliation Signals in Tree Rings

Composite defoliation series to determine outbreak events

Description

outbreak() takes a defol object from defoliate_trees() and composites it into a site-level object. Function parameters allow the user to filter the tree-level series in various ways to optimize thresholds of what constitutes an "outbreak" level event recorded by the host trees.

Usage

outbreak(x, filter_perc = 25, filter_min_series = 3, filter_min_defol = 1)

Arguments

x	a defol object
filter_perc	the minimum percentage of defoliated trees to be considered an outbreak. Default is 25 percent.
filter_min_series	The minimum number of trees required for an outbreak event. Default is 3 trees.
filter_min_defol	The minimum number of trees recording a defoliation event. Default is 1 tree.

Value

A data.frame obr object for the site that includes all trees in the host defol object. Columns in the obr include:

1. year for every year in the set of host trees,

2. num_defol the number of trees recording a defoliation event,

3. percent_defol the percent of trees recording a defoliation,

4. num_max_defol the number of trees recording a maximum growth suppression (or peak of that event on that tree),

5. perc_max_defol the percent of trees at maximum defoliation,

6. mean_gsi the average of all trees growth suppression index (gsi),

7. mean_ngsi the average of all trees normalized growth suppression index (ngsi),

8. outbreak_status whether that year constitutes an outbreak based on the filters applied to the function.

Examples

data("dmj_defol")
head(outbreak(dmj_defol))

chguiterman/bugr documentation built on Aug. 28, 2023, 11:06 p.m.