maturity: Sexual Maturity Functions

In TobieSurette/gulf.data: Southern Gulf of St Lawrence Data Access

Sexual Maturity Functions

Description

Determines whether an organism is sexually mature, based on qualitative or morphometric observational data.

Usage

is.mature(x, ...)

## S3 method for class 'scsbio'
is.mature(x, probability = FALSE, ...)

is.pubescent(x, ...)

## S3 method for class 'scsbio'
is.pubescent(x, ...)

is.adolescent(x, ...)

## S3 method for class 'scsbio'
is.adolescent(x, ...)

is.primiparous(x, ...)

## S3 method for class 'scsbio'
is.primiparous(x, ...)

is.multiparous(x, ...)

## S3 method for class 'scsbio'
is.multiparous(x, ...)

is.senile(x, ...)

## S3 method for class 'scsbio'
is.senile(x, ...)

maturity(x, ...)

## S3 method for class 'scsbio'
maturity(x, ...)

## S3 method for class 'numeric'
maturity(x, year, species, ...)

Arguments

x	Object or numeric maturity code.
...	Further arguments passed onto internal functions.
probability	Logical value specifying whether values are to be returned as probabilities of being mature. For individuals with missing morphometric data or observational sexual characters, a GAM binary regression is performed on the observations by year and the predicted probabilties are returned.
year	Survey year.
species	Species name or code.

Value

Logical vector, probability (when probability = TRUE), or character string.

Functions

is.mature

Generic is.mature function.

is.mature.scsbio

Snow crab biological data (scsbio) maturity method.

is.primiparous

Generic is.primiparous function.

is.primiparous.scsbio

Returns whether a female is primiparous, i.e. a first-time spawner.

is.multiparous

Generic is.multiparous function.

is.multiparous.scsbio

Returns whether a female is multiparous, i.e. has previously spawned.

is.senile

Generic is.senile function.

is.senile.scsbio

Returns whether an animal is senile, i.e. has decreased spawning capability because of old age.

maturity

Generic weight method.

maturity.default

Return sexual maturity status.

maturity.numeric

Convert numeric codes to descriptive maturity character strings.

Examples

x <- read.scsbio(2010)
index <- is.mature(x)
plot(x$carapace.width[index], x$chela.height[index], xlim = c(0, 140), ylim = c(0, 40), 
     xlab = "Carapace width (mm)", ylab = "Chela height (mm)", type = "n")
points(x$carapace.width[index], x$chela.height[index], pch = 21, bg = "grey", cex = 0.4)
points(x$carapace.width[!index], x$chela.height[!index], pch = 21, bg = "red", cex = 0.4)

TobieSurette/gulf.data documentation built on Jan. 19, 2025, 7:50 p.m.