MStruncate: Truncate capture histories for multi-state models

In RMark: R Code for Mark Analysis

Truncate capture histories for multi-state models

Description

Decompose full capture history to releases followed by k recapture occasions. If a recapture occasion occurs before k occasions, the capture history is finished at the first recapture and right padded with "." which effectively acts like a loss on capture. The recapture is then a new release and new capture history. If there are no recaptures within k occasions, it has a release followed by k 0's. If the release is such that adding k occasions is greater than the length of the original capture history, then the new history is left padded with 0's. Capture histories that end with a capture on the last occasion do not generate a new capture history because there are no possible recaptures and thus contain no information in a CJS format MS model. All freq and covariates are copied with newly generated truncated capture histories.

Usage

MStruncate(data, k = 5)

Arguments

data	dataframe containing at least one character field named ch; can also contain frequency in numeric field freq and any other covariates.
k	number of recapture occasions after release; new capture histories are of length k+1

Value

dataframe with field ch and freq (default to 1) and any covariates included in argument data; it also contains a factor variable release which is the first occasion which should be used as a group variable so the begin.time can be set for each release cohort to maintain the original times, as shown in the example.

Examples

data(mstrata)
df=MStruncate(mstrata,k=2)
dp=process.data(df,model="Multistrata",groups=c("release"),begin.time=1:max(as.numeric(df$release)))
ddl=make.design.data(dp)
table(ddl$S$release,ddl$S$time)
table(ddl$p$release,ddl$p$time)

RMark documentation built on Aug. 14, 2022, 1:05 a.m.