ch2matrix: Convert capture histories in text format to a matrix

In IPMbook: Functions and Data for the Book 'Integrated Population Models'

Convert capture histories in text format to a matrix

Description

The function takes capture histories in any of the following formats and converts it to a matrix of integers with one column for each capture occasion and one row for each capture history.

Possible formats for ch are:

1a. a proper CH matrix: numeric, > 1 column – returned unchanged.
1b. the same, as a data frame.

2a. a character vector with "100110", "001100", etc, consisting entirely of digits (no letters, spaces, or symbols).
2b. the same, as a factor.
2c. a numeric vector with 100110, 1100, etc (leading zeros dropped).

3a. a 1-column data frame with 2a, b or c.
3b. a 1-column matrix with 2a or 2c.

Usage

ch2matrix(ch)

Arguments

ch	capture histories in a suitable format, see Description.

Value

A matrix of integers with one column for each capture occasion and one row for each capture history.

Author(s)

Mike Meredith

Examples

# Create some example data
raw <- c("1000", "1000", "1100", "1100", "1100", "1110",
  "0110", "0110", "0111", "0101", "0010", "0011", "0001")

ch1 <- ch2matrix(raw)                 # character vector
cbind(raw, ch1)
ch <- ch2matrix(factor(raw))          # factor
all(ch == ch1)
ch <- ch2matrix(as.numeric(raw))      # numeric
all(ch == ch1)
ch <- ch2matrix(matrix(raw, ncol=1))  # 1 column matrix
all(ch == ch1)
ch <- ch2matrix(data.frame(raw=raw))  # 1 column data frame
all(ch == ch1)

# Error messages:
try(ch2matrix(matrix(rep(raw, 2), ncol=2)))     # 2 column matrix -> error
try(ch2matrix(data.frame(raw=raw, dummy=raw)))  # 2 column data frame -> error

raw[2] <- "11000"          # wrong length
try(ch2matrix(raw))        # error
ch2matrix(as.numeric(raw)) # this works, leading zeros not expected.

IPMbook documentation built on Aug. 22, 2023, 1:07 a.m.