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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 SnpMatrix lists, allowing efficient combination of SNP chip genotyping with microarray expression data, and allied classes |
| combine-method | Class "gwSnpScreenResult" - containers for GGtools gwSnpScreen method outputs and allied objects |
| combine-method | 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 |
| cwSnpScreenResult-class | Class "gwSnpScreenResult" - containers for GGtools gwSnpScreen method outputs and allied objects |
| exprs-method | 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 |
| featureFilter | remove unannotated or undesired features from an smlSet instance |
| filteredGwSnpScreenResult-class | Class "gwSnpScreenResult" - containers for GGtools gwSnpScreen method outputs and allied objects |
| filteredMultiGwSnpScreenResult-class | Class "gwSnpScreenResult" - containers for GGtools gwSnpScreen method outputs and allied objects |
| 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 SnpMatrix lists, allowing efficient combination of SNP chip genotyping with microarray expression data, and allied classes |
| getAlleles-method | 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 |
| getSS | construct a small-footprint smlSet instance from a specially structured package |
| GGbase | GGbase Package Overview |
| GTFfilter | restrict SNP in an smlSet to range of minor allele frequencies (MAF) or genotype frequencies (GTF) |
| gwSnpScreenResult | Class "gwSnpScreenResult" - containers for GGtools gwSnpScreen method outputs and allied objects |
| gwSnpScreenResult-class | Class "gwSnpScreenResult" - containers for GGtools gwSnpScreen method outputs and allied objects |
| MAFfilter | restrict SNP in an smlSet to range of minor allele frequencies (MAF) or genotype frequencies (GTF) |
| make_smlSet | create an smlSet instance from components |
| multiCisTestResult-class | Class "multiCisTestResult" |
| multiGwSnpScreenResult-class | Class "gwSnpScreenResult" - containers for GGtools gwSnpScreen method outputs and allied objects |
| nsFilter-method | 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 |
| 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 outputs and allied objects |
| 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 on session state |
| show-method | Class "genesym" and other casting classes |
| show-method | Class "gwSnpScreenResult" - containers for GGtools gwSnpScreen method outputs and allied objects |
| show-method | Class "multiCisTestResult" |
| show-method | 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 |
| show-method | class and function to summarize frequency information on genotypes in an smlSet |
| smlEnv | 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 |
| smlEnv-method | 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 |
| smList | 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 |
| smList-method | 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 |
| smlSet | 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 |
| smlSet-class | 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 |
| smlSet.example | 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 |
| smlSummary | class and function to summarize frequency information on genotypes in an smlSet |
| smlSummary-class | class and function to summarize frequency information on genotypes in an smlSet |
| snpdepth | Class "genesym" and other casting classes |
| snpdepth-class | Class "genesym" and other casting classes |
| snpNames | 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 |
| snpNames-method | 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 |
| snps | 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 |
| snps-method | 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 |
| updateObject-method | 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 |
| [-method | Class "gwSnpScreenResult" - containers for GGtools gwSnpScreen method outputs and allied objects |
| [-method | 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 |