CTFS.recruitment {CTFS} | R Documentation

## Overview of Analysis of Recruitment Rates in Tropical Tree Populations

### Description

Provides an overview for the analysis of recruitment rates for tree populations by a variety of categories including the functions that are available, supporting functions and ways for using the options of the main functions.

### Details

FUNCTIONS TO COMPUTE RECRUITMENT RATES

`recruitment` | Annual Recruitment Rates by Categories (User defined groups)
`recruitment.eachspp` | Annual Recruitment Rates by Species

FUNCTIONS FOR FORMATTING RESULTS

`assemble.demography` | Reformat the Output from Demographic Functions from List to Dataframe

FUNCTIONS CALLED BY USER FUNCTIONS

`find.climits` | Calculates confidences limits for recruitment rates
`fill.dimension` | Fills all the dimensions of a 2 dimensional array
`fill.1dimension` | Fills all the dimensions of a 1 dimensional array

COMPUTATION OF RECRUITMENT

The annual recruitment rate is calculated as

r = (logN1-logS) / mean(time1-time0)

where `N1` is the number of live individuals at the second census,
where `S` is the number of surviving individuals: trees that were alive in the first census and alive in the second census,
where `time1` and `time0` are expressed in years and is the length of the census interval as recorded for trees in the second census (which includes all of the surviving trees.

The confidence limits are computed using `find.climits` which returns the number of survivors, `S`, out of `N` individuals for each confidenc interval in turn. The beta distribution is used to determine the number of S for the upper 95% and lower 5% (default probability level). Confidence limits for mortality rate are computed as from these CI for `S` as:

rate.CI.upper = ( logN1 - log(S.lowerCI) ) / mean(time1 - time0)
rate.CI.lower = ( logN1 - log(S.upperCI) ) / mean(time1 - time0)

Note that `S.lowerCI` is a lower value of `S` which results in a higher number of recruits and hence a higher recruitment rate. And `S.upperCI` is a higher value of `S` which results in a lower number of deaths and hence a lower recruitment rate.

### Author(s)

Rick Condit and Pamela Hall

### See Also

`CTFS.groupcats`

[Package CTFS version 1.00 Index]