Entry: GGbase-package
Aliases: GGbase-package GGbase
Keywords: package
Description: GGbase Package Overview
URL: ../../../library/GGBase/html/GGBase-package.html

Entry: MAFfilter
Aliases: MAFfilter
Keywords: models
Description: restrict SNP in an smlSet to range of minor allele frequencies (MAF)
URL: ../../../library/GGBase/html/MAFfilter.html

Entry: SessionInfo-class
Aliases: SessionInfo-class
Keywords: classes
Description: Class "SessionInfo" -- objects to help stamp an output with information on session state
URL: ../../../library/GGBase/html/SessionInfo-class.html

Entry: genesym-class
Aliases: phenoVar genesym-class genesym,character-method phenoVar-class phenoVar,character-method chrnum-class chrnum,numeric-method chrnum,character-method rsid-class rsid,character-method rsid,numeric-method probeId,character-method cnumOrMissing-class probeId-class genesym probeId chrnum rsid show,rsid-method show,chrnum-method snpdepth snpdepth-class cnumOrMissing
Keywords: classes
Description: Class "genesym" and other casting classes
URL: ../../../library/GGBase/html/casting.html

Entry: featureFilter
Aliases: featureFilter
Keywords: models
Description: remove unannotated or undesired features from an smlSet instance
URL: ../../../library/GGBase/html/featureFilter.html

Entry: gwSnpScreenResult-class
Aliases: gwSnpScreenResult gwSnpScreenResult-class cwSnpScreenResult-class multiGwSnpScreenResult-class filteredGwSnpScreenResult-class filteredMultiGwSnpScreenResult-class show,filteredMultiGwSnpScreenResult-method show,filteredGwSnpScreenResult-method show,cwSnpScreenResult-method show,gwSnpScreenResult-method show,multiGwSnpScreenResult-method plot,cwSnpScreenResult,ANY-method plot,gwSnpScreenResult,ANY-method plot,multiGwSnpScreenResult,ANY-method [,cwSnpScreenResult,ANY,ANY,ANY-method [,gwSnpScreenResult,ANY,ANY,ANY-method combine,filteredMultiGwSnpScreenResult,filteredMultiGwSnpScreenResult-method combine,multiGwSnpScreenResult,multiGwSnpScreenResult-method
Keywords: classes
Description: Class "gwSnpScreenResult" -- containers for GGtools gwSnpScreen method outputs and allied objects
URL: ../../../library/GGBase/html/gwSnpScreenResult-class.html

Entry: multiCisTestResult-class
Aliases: multiCisTestResult-class show,multiCisTestResult-method
Keywords: classes
Description: Class "multiCisTestResult"
URL: ../../../library/GGBase/html/multiCisTestResult-class.html

Entry: plot_EvG-methods
Aliases: plot_EvG plot_EvG2 plot_EvG-methods plot_EvG,genesym,rsid,smlSet-method plot_EvG,probeId,rsid,smlSet-method plot_EvG2,genesym,rsid,rsid,smlSet-method plot_EvG2,probeId,rsid,rsid,smlSet-method
Keywords: methods
Description: formal method for visualizing expression distributions vs genotype
URL: ../../../library/GGBase/html/plot_EvG-methods.html

Entry: smlSet-class
Aliases: smlSet smlSet-class smList,smlSet-method getAlleles,smlSet,rsid-method getAlleles smlEnv,smlSet-method [,snp.matrix,ANY,rsid,ANY-method [,smlSet,ANY,ANY,ANY-method exprs,smlSet-method snps snps,smlSet,chrnum-method show,smlSet-method combine,smlSet,smlSet-method snpNames snpNames,smlSet,chrnum-method snpNames,smlSet,missing-method smList smlEnv
Keywords: classes
Description: Documentation on S4 class "smlSet" an eSet-derived container for snpMatrix lists, allowing efficient combination of SNP chip genotyping with microarray expression data, and allied classes
URL: ../../../library/GGBase/html/smlSet-class.html

Entry: smlSummary
Aliases: smlSummary smlSummary-class show,smlSummary-method
Keywords: models
Description: class and function to summarize frequency information on genotypes in an smlSet
URL: ../../../library/GGBase/html/smlSummary.html

Entry: snpLocs.Hs
Aliases: snpLocs.Hs hsSnpLocs snpLocs.Hs getSnpLocs getSnpLocs,smlSet,chrnum-method getSnpLocs,smlSet,missing-method snpLocs.Hs,chrnum.rsid-method snpLocs.Hs,chrnum.missing-method snpLocs.Hs,missing,rsid-method snpLocs.Hs,rsid-method snpLocs.Hs,rsid,ANY-method snpLocs-class show,snpLocs-method snpLocs.Hs,chrnum,rsid-method snpLocs.Hs,chrnum,missing-method snpLocs.Hs,missing,rsid-method snpLocs.Hs,sid,ANY-method
Keywords: models
Description: SNP location accessor
URL: ../../../library/GGBase/html/snpLocs.Hs.html

Entry: snpsNear
Aliases: snpsNear
Keywords: models
Description: obtain list of rs numbers for snps near a gene
URL: ../../../library/GGBase/html/snpsNear.html
