hierGWAS: Asessing statistical significance in predictive GWA studies

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Testing individual SNPs, as well as arbitrarily large groups of SNPs in GWA studies, using a joint model of all SNPs. The method controls the FWER, and provides an automatic, data-driven refinement of the SNP clusters to smaller groups or single markers.

Author
Laura Buzdugan
Date of publication
None
Maintainer
Laura Buzdugan <buzdugan@stat.math.ethz.ch>
License
GPL-3
Version
1.4.0

View on Bioconductor

Man pages

cluster.snp
Hierarchical Clustering of SNP Data
compute.r2
R2 computation
hierGWAS
Asessing statistical significance in predictive GWA studies
multisplit
Variable Selection on Random Sample Splits.
simGWAS
Simulated GWAS data
test.hierarchy
Hierarchical Testing of SNPs

Files in this package

hierGWAS/DESCRIPTION
hierGWAS/NAMESPACE
hierGWAS/NEWS
hierGWAS/R
hierGWAS/R/MEL.R
hierGWAS/R/adj.pval.R
hierGWAS/R/cluster.snp.R
hierGWAS/R/comp.cluster.pval.R
hierGWAS/R/compute.r2.R
hierGWAS/R/iterative.DFS.R
hierGWAS/R/lasso.select.R
hierGWAS/R/multisplit.R
hierGWAS/R/return.r2.R
hierGWAS/R/test.hierarchy.R
hierGWAS/R/test.snp.R
hierGWAS/build
hierGWAS/build/vignette.rds
hierGWAS/data
hierGWAS/data/simGWAS.rda
hierGWAS/inst
hierGWAS/inst/doc
hierGWAS/inst/doc/hierGWAS.R
hierGWAS/inst/doc/hierGWAS.Rnw
hierGWAS/inst/doc/hierGWAS.pdf
hierGWAS/inst/unitTests
hierGWAS/inst/unitTests/test_cluster.snp.R
hierGWAS/inst/unitTests/test_multisplit.R
hierGWAS/man
hierGWAS/man/cluster.snp.Rd
hierGWAS/man/compute.r2.Rd
hierGWAS/man/hierGWAS.Rd
hierGWAS/man/multisplit.Rd
hierGWAS/man/simGWAS.Rd
hierGWAS/man/test.hierarchy.Rd
hierGWAS/tests
hierGWAS/tests/runTests.R
hierGWAS/vignettes
hierGWAS/vignettes/flowchart2.pdf
hierGWAS/vignettes/hierGWAS.Rnw