lmem.qtler: Linear Mixed Effects Models for QTL Mapping for Multienvironment and Multitrait Analysis
Version 0.1.1

Performs QTL mapping analysis for balanced and for multi-environment and multi-trait analysis using mixed models. Balanced population, single trait, single environment QTL mapping is performed through marker-regression (Haley and Knott (1992) , Martinez and Curnow (1992) , while multi-environment and multi-trait QTL mapping is performed through linear mixed models. These functions could use any of the following populations: double haploid, F2, recombinant inbred lines, back-cross, and 4-way crosses. Performs a Single Marker Analysis, a Single Interval Mapping, or a Composite Interval Mapping analysis, and then constructs a final model with all of the relevant QTL.

AuthorLucia Gutierrez [aut], Gaston Quero [aut, cre], Schubert Fernandez [aut], Sofia Brandariz [aut], Sebastian Simondi [ctb]
Date of publication2016-07-12 07:49:42
MaintainerGaston Quero <gastonquero@gmail.com>
LicenseGPL-3
Version0.1.1
Package repositoryView on CRAN
InstallationInstall the latest version of this package by entering the following in R:
install.packages("lmem.qtler")

Getting started

Mixed-model QTL detection by linkage analysis"

Popular man pages

DHpop_geno: Name of the file containing genotypic (marker scores)...
DHpop_map: Name of the file containing genotypic (marker scores)...
DHpop_pheno: Name of the file containing genotypic (marker scores)...
qtl.cross: Read genomic data to perform QTL analyses.
qtl.memq: Performs Multi-Environment (or Multi-Trait) Multi-QTL...
SxM_pheno: Name of the file containing phenotypic information.
SxMxE_pheno: Name of the file containing phenotypic information.
See all...

All man pages Function index File listing

Man pages

DHpop_geno: Name of the file containing genotypic (marker scores)...
DHpop_map: Name of the file containing genotypic (marker scores)...
DHpop_pheno: Name of the file containing genotypic (marker scores)...
mq.diagnostics: Performs molecular markers quality diagnostics.
pq.diagnostics: Performs phenotypic data quality diagnostics.
qtl.analysis: Performs a balanced population QTL mapping analysis.
qtl.cross: Read genomic data to perform QTL analyses.
qtl.memq: Performs Multi-Environment (or Multi-Trait) Multi-QTL...
SxM_geno: Name of the file containing genotypic (marker scores)...
SxM_map: Name of the file containing genotypic (marker scores)...
SxM_pheno: Name of the file containing phenotypic information.
SxMxE_pheno: Name of the file containing phenotypic information.

Functions

DHpop_geno Man page
DHpop_map Man page
DHpop_pheno Man page
SxM_geno Man page
SxM_map Man page
SxM_pheno Man page
SxMxE_pheno Man page
mq.diagnostics Man page Source code
pq.diagnostics Man page Source code
qtl.analysis Man page Source code
qtl.cross Man page Source code
qtl.memq Man page Source code

Files

inst
inst/CITATION
inst/doc
inst/doc/lmem.qtler.Rmd
inst/doc/lmem.qtler.html
inst/doc/lmem.qtler.R
NAMESPACE
data
data/SxMxE_pheno.rda
data/DHpop_pheno.rda
data/SxM_pheno.rda
data/DHpop_geno.rda
data/SxM_map.rda
data/SxM_geno.rda
data/DHpop_map.rda
R
R/DHpop_pheno.R
R/SxM_map.R
R/diagnosis_functions.R
R/qtl.cross.R
R/SxM_geno.R
R/DHpop_geno.R
R/qtl.analysis.R
R/DHpop_map.R
R/SxM_pheno.R
R/SxMxE_pheno.R
R/qtl.memq.R
vignettes
vignettes/lmem.qtler.Rmd
MD5
build
build/vignette.rds
DESCRIPTION
man
man/DHpop_pheno.Rd
man/qtl.cross.Rd
man/SxM_geno.Rd
man/DHpop_geno.Rd
man/SxM_map.Rd
man/pq.diagnostics.Rd
man/qtl.analysis.Rd
man/SxMxE_pheno.Rd
man/SxM_pheno.Rd
man/DHpop_map.Rd
man/mq.diagnostics.Rd
man/qtl.memq.Rd
lmem.qtler documentation built on May 20, 2017, 2:32 a.m.

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