RepeatABEL: GWAS for Multiple Observations on Related Individuals
Version 1.1

Performs genome-wide association studies on individuals that are both related and have repeated measurements.

AuthorLars Ronnegard
Date of publication2016-08-18 09:07:21
MaintainerLars Ronnegard <lrn@du.se>
LicenseGPL
Version1.1
Package repositoryView on R-Forge
InstallationInstall the latest version of this package by entering the following in R:
install.packages("RepeatABEL", repos="http://R-Forge.R-project.org")

Getting started

Package overview

Popular man pages

compute.GRM: Computes a Genetic Relationship Matrix from a GenABEL object
constructV: Constructs the (co)variance matrix for y
flycatchers: 10,000 SNPs from 849 collared flycatchers
RepeatABEL-package: GWAS for repeated observations on related individuals
rGLS: GWAS for Studies having Repeated Measurements on Related...
simulate_PhenData: Simulation function for the RepeatABEL package.
thinned.flycatchers: 10,000 SNPs from 200 collared flycatchers
See all...

All man pages Function index File listing

Man pages

compute.GRM: Computes a Genetic Relationship Matrix from a GenABEL object
constructV: Constructs the (co)variance matrix for y
Create_gwaa_scan: Creates a scan.gwaa object
flycatchers: 10,000 SNPs from 849 collared flycatchers
gen.data: Example GenABEL data
Phen.Data: Example phenotype data
preFitModel: Fits a linear mixed model (without fixed SNP effects) and...
RepeatABEL-package: GWAS for repeated observations on related individuals
rGLS: GWAS for Studies having Repeated Measurements on Related...
simulate_PhenData: Simulation function for the RepeatABEL package.
SmoothSNPmatrix: Imputes column means to missing genotypes
thinned.flycatchers: 10,000 SNPs from 200 collared flycatchers

Functions

Create_gwaa_scan Man page Source code
Phen.Data Man page
RepeatABEL Man page
RepeatABEL-package Man page
SmoothSNPmatrix Man page Source code
compute.GRM Man page Source code
constructV Man page Source code
flycatchers Man page
gen.data Man page
preFitModel Man page Source code
rGLS Man page Source code
simulate_PhenData Man page Source code
thinned.flycatchers Man page

Files

ChangeLog
DESCRIPTION
NAMESPACE
R
R/Create_gwaa_scan.R
R/SmoothSNPmatrix.R
R/compute.GRM.R
R/constructV.R
R/preFitModel.R
R/rGLS.R
R/simulate_PhenData.R
build
build/vignette.rds
data
data/Phen.Data.rda
data/datalist
data/flycatchers.rda
data/gen.data.rda
data/thinned.flycatchers.rda
inst
inst/CITATION
inst/doc
inst/doc/RepeatABEL_vignette.R
inst/doc/RepeatABEL_vignette.Rnw
inst/doc/RepeatABEL_vignette.pdf
man
man/Create_gwaa_scan.Rd
man/Phen.Data.Rd
man/RepeatABEL-package.Rd
man/SmoothSNPmatrix.Rd
man/compute.GRM.Rd
man/constructV.Rd
man/flycatchers.Rd
man/gen.data.Rd
man/preFitModel.Rd
man/rGLS.Rd
man/simulate_PhenData.Rd
man/thinned.flycatchers.Rd
vignettes
vignettes/Figure_Manhattan.pdf
vignettes/RepeatABEL_vignette.Rnw
vignettes/marginnote
vignettes/marginnote/README
vignettes/marginnote/marginnote.dtx
vignettes/marginnote/marginnote.ins
vignettes/marginnote/marginnote.pdf
vignettes/marginnote/marginnote.sty
RepeatABEL documentation built on May 21, 2017, 3:38 a.m.

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