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GENLIB (version 1.0.3)

Genealogical Data Analysis

Description

Genealogical data analysis including descriptive statistics (e.g., kinship and inbreeding coefficients) and gene-dropping simulations.

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Version

Install

install.packages('GENLIB')

Monthly Downloads

267

Version

1.0.3

License

GPL (>= 2)

Maintainer

Marie-Helene Roy-Gagnon

Last Published

March 20th, 2015

Functions in GENLIB (1.0.3)

gen.gc

Genetic contribution of ancestors
gen.climbPAR

Internal function used by gen.findMRCA
gen.completeness

Completeness
GLmultiList-class

Class "GLmultiList"
gen.max

Maximum number of generations
Classes of GLgroupe handling

Classes "GLmultiPhiGroup" "GLmultiPhiGroupSingle" "GLmultiFGroup" "GLmultiFGroupSingle" "GLCGMatrixGroupSingle"
gen.findFounders

Find common founder ancestors
GenlibR-package

Genealogical Data Analysis
gen.completenessVar

Variance of completeness index
gen.findDistance

Minimum genetic distance between two individuals
gen.genealogy

Create object of class GLgen
gen.find.Min.Distance.MRCA

Finds the minimum distances between pairs of individuals given a set of ancestors.
gen.getFoundersPAR

Internal function used by gen.findFounders
gen.fCI

Average inbreeding coefficient confidence interval
gen.implexVar

Variance of genealogical implex
gen.implex

Genealogical implex
gen.getAncestorsPAR

Internal function used by gen.findMRCA
gen.graph

Pedigree graphical tool
gen.half.founder

Get half-founder id numbers
gen.meangendepth

Expected Genealogical Depth)
gen.children

Get id numbers of children
gen.branching

Genealogy subset
gen.founder

Get founder id numbers
gen.f

Inbreeding coefficient
Classes of basic handling of genealogy data

Classes "GLmultiVector" "GLmultiArray4" "GLmultiMatrix" "GLmultiNumber"
gen.depth

Genealogy depth
gen.genout

Create pedigree data
gen.findMRCA

Finding most recent common ancestors, MRCAs
GLgen-class

Class "GLgen"
GLgroupe-class

Class "GLgroupe"
gen.mean

Mean number of generations
gen.rec

Ancestors coverage
gen.occ

Ancestor occurences
genea140

Genealogical information for 140 individuals from the Quebec Reference Sample
gen.simuSample

Gene dropping simulations - Sample
geneaJi

Highly inbred pedigree
gen.phiMean

Average kinship
gen.meangendepthVar

Variance of genealogical depth
gen.simuSampleFreq

Gene dropping simulations - Frequencies
gen.nomen

Number of men
gen.pro

Get proband id numbers
pop140

Population of origin of the 140 Quebec samples
gen.phiCI

Average kinship confidence interval
gen.phi

Kinship coefficient
gen.min

Minimum number of generations
gen.parent

Get id numbers of parents
gen.simuProb

Gene dropping simulations - Probabilities
gen.lineages

Create object of class GLgen for maternal or paternal lineages
gen.noind

Number of individuals
gen.phiOver

Kinship above threshold
gen.nowomen

Number of women
gen.simuSet

Gene dropping simulations with specified transmission probabilities
gen.sibship

Get id numbers of siblings
gen.nochildren

Number of children