HIBAG-package           HLA Genotype Imputation with Attribute Bagging
HLA_Type_Table          Four-digit HLA types of a study simulated from
                        HapMap CEU
HapMap_CEU_Geno         SNP genotypes of a study simulated from HapMap
                        CEU genotypic data
hlaAASeqClass           Class of HLA Amino Acid Sequence Type
hlaAllele               A list of HLA/KIR types
hlaAlleleClass          Class of HLA/KIR Type
hlaAlleleDigit          Trim HLA alleles
hlaAlleleSubset         Get a subset of HLA/KIR types
hlaAlleleToVCF          Convert HLA alleles to VCF
hlaAssocTest            Statistical Association Tests
hlaAttrBagClass         The class of HIBAG model
hlaAttrBagObj           The class of HIBAG object
hlaAttrBagging          Build a HIBAG model
hlaBED2Geno             Convert from PLINK BED format
hlaCheckAllele          Check SNP alleles
hlaCheckSNPs            Check the SNP predictors in a HIBAG model
hlaClose                Dispose a model object
hlaCombineAllele        Combine two datasets of HLA types
hlaCombineModelObj      Combine two HIBAG models together
hlaCompareAllele        Evaluate prediction accuracies
hlaConvSequence         Conversion From HLA Alleles to Amino Acid
                        Sequences
hlaDistance             Distance matrix of HLA alleles
hlaFlankingSNP          SNP IDs or SNP genotypes in Flanking Region
hlaGDS2Geno             Import genotypes from a GDS file
hlaGeno2PED             Convert to PLINK PED format
hlaGenoAFreq            Allele Frequency
hlaGenoCombine          Combine two genotypic data sets into one
hlaGenoLD               Composite Linkage Disequilibrium
hlaGenoMFreq            Minor Allele Frequency
hlaGenoMRate            Missing Rates Per SNP
hlaGenoMRate_Samp       Missing Rates Per Sample
hlaGenoSubset           Get a subset of genotypes
hlaGenoSwitchStrand     Allele flipping if needed
hlaLDMatrix             Composite Linkage Disequilibrium in a Region
hlaLociInfo             HLA/KIR Locus Information
hlaMakeSNPGeno          Make a SNP genotype object
hlaModelFiles           Load a model object from files
hlaModelFromObj         Conversion between the in-memory model and the
                        object that can be saved in a file
hlaOutOfBag             Out-of-bag estimation of overall accuracy,
                        per-allele sensitivity, etc
hlaParallelAttrBagging
                        Build a HIBAG model via parallel computation
hlaPredMerge            Merge prediction results from multiple HIBAG
                        models
hlaPredict              HIBAG model prediction (in parallel)
hlaPublish              Finalize a HIBAG model
hlaReport               Format a report
hlaReportPlot           Format a report with figures
hlaSNPGenoClass         The class of SNP genotypes
hlaSNPID                Get SNP IDs and positions
hlaSampleAllele         Get sample IDs from HLA types with a filter
hlaSetKernelTarget      Set the CPU target
hlaSplitAllele          Divide the samples randomly
hlaSubModelObj          Get a subset of individual classifiers
hlaUniqueAllele         Get unique HLA alleles
plot.hlaAttrBagObj      Plot a HIBAG model
print.hlaAttrBagClass   Summarize a "hlaAttrBagClass" or
                        "hlaAttrBagObj" object.
summary.hlaAlleleClass
                        Summarize a "hlaAlleleClass" or "hlaAASeqClass"
                        object
summary.hlaSNPGenoClass
                        Summarize a SNP dataset
