fMatrix-class: Class fMatrix.

In genostats/Fantasio: Genetic Data Analyses in Presence of Inbreeding

Class fMatrix.

Description

Class defines a mother class for all the subclasses in the package Fantasio.

Slots

ncol

number of loci

nrow

number of individual

ped

the first 6 columns of a .ped

map

id, chr, distance

epsilon

value of epsilon = genotyping error rare, to use for computing log emission precalculated at initialisation

delta.dist

difference of map$distance

log.emiss

matrix of log proba emission if statut = 0 or 1(2 nb inds x nb msats)

a

value of a estimated by festim

f

value of f estimated by festim

likelihood0

likelihood under H0 (f = 0)

likelihood1

likelihood under H1

p.lrt

likelihood ratio test

HBD.prob

proba HBD = 1 ; one individual per column : dim = (nb inds x nb msats)

FLOD

matrix of FLOD scores dim = (nb inds x nb msats)

genostats/Fantasio documentation built on Feb. 2, 2023, 5:28 p.m.