Probs: Calculates mahalanobis distance and rejection of the Null...

In SAMtool: Stock Assessment Methods Toolkit

Calculates mahalanobis distance and rejection of the Null operating model

Description

Calculates mahalanobis distance and rejection of the Null operating model, used by wrapping function PRBcalc.

Usage

Probs(indPPD, indData, alpha = 0.05, removedat = FALSE, removethresh = 0.05)

Arguments

indPPD	A 3D array of results arising from running getind on an MSE of the Null operating model (type of data/stat (e.g. mean catches),time period (chunk), simulation)
indData	A 3D array of results arising from running getind on an MSE of the Alternative operating model (type of data/stat (e.g. mean catches),time period (chunk), simulation)
alpha	Positive fraction: rate of type I error, alpha
removedat	Logical, should data not contributing to the mahalanobis distance be removed?
removethresh	Positive fraction: the cumulative percentage of removed data (removedat=TRUE) that contribute to the mahalanobis distance

Value

A list object. Position 1 is an array of the mahalanobis distances. Dimension 1 is length 2 for the Null OM (indPPD) and the alternative OM (indData). Dimension 2 is the time block (same length as indPPD dim 2). Dimension 3 is the simulation number (same length at indPPD dim 3.), Position 2 is a matrix (2 rows, ntimeblock columns) which is (row 1) alpha: the rate of false positives, and row 2 the power (1-beta) the rate of true positives

Author(s)

T. Carruthers

References

Carruthers and Hordyk 2018

SAMtool documentation built on Nov. 18, 2023, 9:07 a.m.