multimarkSCRsetup-class: Class '"multimarkSCRsetup"'

In multimark: Capture-Mark-Recapture Analysis using Multiple Non-Invasive Marks

Class "multimarkSCRsetup"

Description

A class of spatial 'mulitmark' model inputs

Slots

Enc.Mat

Object of class "matrix". The observed encounter histories (with rows corresponding to individuals and columns corresponding to sampling occasions).

data.type

Object of class "character". The encounter history data type ("never", "sometimes", or "always").

vAll.hists

Object of class "integer". An ordered vector containing all possible encounter histories in sequence.

Aprime

Object of class "sparseMatrix". Transpose of the A matrix mapping latent encounter histories to observed histories.

indBasis

Object of class "numeric".An ordered vector of the indices of the three encounter histories updated by each basis vector.

ncolbasis

Object of class "integer". The number of needed basis vectors.

knownx

Object of class "integer". Frequencies of known encounter histories.

C

Object of class "integer". Sampling occasion of first capture for each encounter history.

L

Object of class "integer". Sampling occasion of last capture for each encounter history.

naivex

Object of class "integer". “Naive” latent history frequencies assuming a one-to-one mapping with Enc.Mat.

covs

Object of class "data.frame". Temporal covariates for detection probability (the number of rows in the data frame must equal the number of sampling occasions).

spatialInputs

Object of class "list". List is of length 4 containing trapCoords and studyArea after re-scaling coordinates based on maxscale, as well as the original (not re-scaled) grid cell resolution (origCellRes) and re-scaling range (Srange).

Objects from the Class

Objects can be created by calls of the form processdata(Enc.Mat, ...) or new("multimarkSCRsetup", ...).

Methods

No methods defined with class "multimarkSCRsetup".

Author(s)

Brett T. McClintock

See Also

processdataSCR

Examples

showClass("multimarkSCRsetup")

multimark documentation built on March 31, 2023, 9:33 p.m.