infrastructure for genetics of gene expression (c) 2008 VJ Carey


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Documentation for package ‘GGBase’ version 3.10.0

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GGbase-package GGbase Package Overview
chrnum Class "genesym" and other casting classes
chrnum-class Class "genesym" and other casting classes
chrnum-method Class "genesym" and other casting classes
cnumOrMissing Class "genesym" and other casting classes
cnumOrMissing-class Class "genesym" and other casting classes
coerce-method Documentation on S4 class "smlSet" an eSet-derived container for
combine-method Class "gwSnpScreenResult" - containers for GGtools gwSnpScreen method
combine-method Documentation on S4 class "smlSet" an eSet-derived container for
cwSnpScreenResult-class Class "gwSnpScreenResult" - containers for GGtools gwSnpScreen method
exprs-method Documentation on S4 class "smlSet" an eSet-derived container for
featureFilter remove unannotated or undesired features from an smlSet instance
filteredGwSnpScreenResult-class Class "gwSnpScreenResult" - containers for GGtools gwSnpScreen method
filteredMultiGwSnpScreenResult-class Class "gwSnpScreenResult" - containers for GGtools gwSnpScreen method
genesym Class "genesym" and other casting classes
genesym-class Class "genesym" and other casting classes
genesym-method Class "genesym" and other casting classes
getAlleles Documentation on S4 class "smlSet" an eSet-derived container for
getAlleles-method Documentation on S4 class "smlSet" an eSet-derived container for
getSnpLocs SNP location accessor
getSnpLocs-method SNP location accessor
GGbase GGbase Package Overview
GTFfilter restrict SNP in an smlSet to range of minor allele frequencies (MAF) or
gwSnpScreenResult Class "gwSnpScreenResult" - containers for GGtools gwSnpScreen method
gwSnpScreenResult-class Class "gwSnpScreenResult" - containers for GGtools gwSnpScreen method
hsSnpLocs SNP location accessor
MAFfilter restrict SNP in an smlSet to range of minor allele frequencies (MAF) or
make_smlSet create an smlSet instance from components
multiCisTestResult-class Class "multiCisTestResult"
multiGwSnpScreenResult-class Class "gwSnpScreenResult" - containers for GGtools gwSnpScreen method
phenoVar Class "genesym" and other casting classes
phenoVar-class Class "genesym" and other casting classes
phenoVar-method Class "genesym" and other casting classes
plot-method Class "gwSnpScreenResult" - containers for GGtools gwSnpScreen method
plot_EvG formal method for visualizing expression distributions vs genotype
plot_EvG-method formal method for visualizing expression distributions vs genotype
plot_EvG-methods formal method for visualizing expression distributions vs genotype
plot_EvG2 formal method for visualizing expression distributions vs genotype
plot_EvG2-method formal method for visualizing expression distributions vs genotype
probeId Class "genesym" and other casting classes
probeId-class Class "genesym" and other casting classes
probeId-method Class "genesym" and other casting classes
rsid Class "genesym" and other casting classes
rsid-class Class "genesym" and other casting classes
rsid-method Class "genesym" and other casting classes
SessionInfo-class Class "SessionInfo" - objects to help stamp an output with information
show-method Class "genesym" and other casting classes
show-method Class "gwSnpScreenResult" - containers for GGtools gwSnpScreen method
show-method Class "multiCisTestResult"
show-method Documentation on S4 class "smlSet" an eSet-derived container for
show-method class and function to summarize frequency information on genotypes in
show-method SNP location accessor
smlEnv Documentation on S4 class "smlSet" an eSet-derived container for
smlEnv-method Documentation on S4 class "smlSet" an eSet-derived container for
smList Documentation on S4 class "smlSet" an eSet-derived container for
smList-method Documentation on S4 class "smlSet" an eSet-derived container for
smlSet Documentation on S4 class "smlSet" an eSet-derived container for
smlSet-class Documentation on S4 class "smlSet" an eSet-derived container for
smlSet.example Documentation on S4 class "smlSet" an eSet-derived container for
smlSummary class and function to summarize frequency information on genotypes in
smlSummary-class class and function to summarize frequency information on genotypes in
snpdepth Class "genesym" and other casting classes
snpdepth-class Class "genesym" and other casting classes
snpLocs-class SNP location accessor
snpLocs.Hs SNP location accessor
snpLocs.Hs-method SNP location accessor
snpLocs.Hsapiens acquire SNP locations
snpNames Documentation on S4 class "smlSet" an eSet-derived container for
snpNames-method Documentation on S4 class "smlSet" an eSet-derived container for
snps Documentation on S4 class "smlSet" an eSet-derived container for
snps-method Documentation on S4 class "smlSet" an eSet-derived container for
snpsNear obtain list of rs numbers for snps near a gene
updateObject-method Documentation on S4 class "smlSet" an eSet-derived container for
[-method Class "gwSnpScreenResult" - containers for GGtools gwSnpScreen method
[-method Documentation on S4 class "smlSet" an eSet-derived container for