aml: Adaptive Mixed LASSO

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This package implements the adaptive mixed lasso (AML) method proposed by Wang et al.(2011). AML applies adaptive lasso penalty to a large number of predictors, thus producing a sparse model, while accounting for the population structure in the linear mixed model framework. The package here is primarily designed for application to genome wide association studies or genomic prediction in plant breeding populations, though it could be applied to other settings of linear mixed models.

Author
Dong Wang
Date of publication
2013-11-28 08:14:36
Maintainer
Dong Wang <dwangstat@gmail.com>
License
GPL (>= 2)
Version
0.1-1
URLs

View on CRAN

Man pages

aml.estimate
Estimate Genetic Values Using AML Fit
aml.pred.outside
Prediction With Adaptive Mixed LASSO
amltest
Adaptive Mixed LASSO Analysis
cleanclust
Clean, Impute, and Filter Markers
epigen
Generate Epistatic Effect Matrix
wheat
Genetic and Phenotype Data of a Wheat Breeding Population

Files in this package

aml
aml/NAMESPACE
aml/data
aml/data/wheat.RData
aml/R
aml/R/aml.pred.outside.R
aml/R/epigen.R
aml/R/aml.estimate.R
aml/R/au.function.R
aml/R/amltest.R
aml/R/cleanclust.R
aml/MD5
aml/DESCRIPTION
aml/man
aml/man/epigen.Rd
aml/man/wheat.Rd
aml/man/amltest.Rd
aml/man/aml.pred.outside.Rd
aml/man/cleanclust.Rd
aml/man/aml.estimate.Rd