packval: Pack and unpack contribution and marker frequencies

In bbolker/mixstock: Functions for Mixed Stock Analysis

Pack and unpack contribution and marker frequencies

Description

Packs/unpacks source contributions and source marker frequencies into a single vector, after transforming them to an uncorrelated (and possibly unbounded) set of parameters.

Usage

packval(f, r, transf="part")
packval2(x,R=2,H=3)
unpackval(p,R=2,H=2,x.orig=NULL,transf="full",input.only=FALSE)
unpackval2(p,R=2,H=2,transf="full",x.orig=NULL)

Arguments

f	Source contributions (numeric vector, all between 0 and 1, sum equals 1)
r	Source marker frequencies: matrix of marker frequencies (row=marker, column=source)
x	a numeric vector containing (elements 1 to R) source contributions and (elements R+1 to (R+R*H)) marker frequencies in sources
p	a packed/transformed parameter vector
transf	Transform to unbounded variables? ("full","part","none") (See p.to.q for description/warnings.)
R	number of sources
H	number of markers
x.orig	original data (for extracting source/marker names)
input.only	return only contribution parameters?

Value

packval packs source contributions and marker frequencies specified as a separate vector and a matrix: packval2 packs them (i.e. transforms them) when they have already been run together as a vector. Either produces a numeric vector of the transformed values, with length (R-1+R*(H-1)). unpackval and unpackval2 invert the operation, producing a list

input.freq	source contributions
source.freq	marker frequencies in sources

or a vector respectively.

Author(s)

Ben Bolker

See Also

p.to.q

Examples

data(simex)
sourcefreq <- sweep(simex$sourcesamp,2,apply(simex$sourcesamp,2,sum),"/")
packval(c(0.2,0.8),sourcefreq)
packval(c(0.2,0.8),sourcefreq,transf="full")

bbolker/mixstock documentation built on July 23, 2024, 12:18 p.m.