HapMap_CEU_Geno | SNP genotypes of a study simulated from HapMap CEU genotypic... |
HIBAG-package | HLA Genotype Imputation with Attribute Bagging |
hlaAllele | A list of HLA types |
hlaAlleleClass | Class of HLA Type |
hlaAlleleDigit | Trim HLA alleles |
hlaAlleleSubset | Get a subset of HLA types |
hlaAttrBagClass | The class of HIBAG model |
hlaAttrBagging | Build a HIBAG model |
hlaAttrBagObj | The class of HIBAG object |
hlaBED2Geno | Convert from PLINK BED format |
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 |
hlaErrMsg | The last error message |
hlaFlankingSNP | SNP IDs in Flanking Region |
hlaGDS2Geno | Convert from SNP GDS format |
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 switching |
hlaHaplo2Geno | Get a genotype object from a specified haplotype object |
hlaHaploSubset | Get a subset of haplotypes |
hlaLociInfo | HLA Locus Information |
hlaMakeSNPGeno | Make a SNP genotype object |
hlaMakeSNPHaplo | Make a SNP haplotype object |
hlaModelFiles | Load a model object from files |
hlaModelFromObj | Build a model from "hlaAttrBagObj" |
hlaModelToObj | Convert "hlaAttrBagClass" to "hlaAttrBagObj" |
hlaOutOfBag | Out-of-bag estimation of overall accuracy, per-allele... |
hlaParallelAttrBagging | Build a HIBAG model via parallel computation |
hlaPredMerge | Merge prediction results from multiple HIBAG models |
hlaPublish | Finalize a HIBAG model |
hlaReport | Format a report |
hlaResource | Model Resource Information |
hlaSampleAllele | Get sample IDs from HLA types with a filter |
hlaSNPGenoClass | The class of SNP genotypes |
hlaSNPHaploClass | The class of SNP haplotypes |
hlaSNPID | Get SNP IDs and positions |
hlaSplitAllele | Divide the samples randomly |
hlaSubModelObj | Get a subset of individual classifiers |
HLA_Type_Table | Four-digit HLA types of a study simulated from HapMap CEU |
hlaUniqueAllele | Get unique HLA alleles |
plot.hlaAttrBagClass | Plot a "hlaAttrBagClass" object |
plot.hlaAttrBagObj | Plot a "hlaAttrBagObj" object |
predict.hlaAttrBagClass | HIBAG model prediction (in parallel) |
print.hlaAttrBagClass | Summarize a "hlaAttrBagClass" object |
print.hlaAttrBagObj | Summarize a "hlaAttrBagObj" object |
summary.hlaAlleleClass | Summarize a "hlaAlleleClass" object |
summary.hlaAttrBagClass | Summarize a "hlaAttrBagClass" object |
summary.hlaAttrBagObj | Summarize a "hlaAttrBagObj" object |
summary.hlaSNPGenoClass | Summarize the genotypic dataset |
summary.hlaSNPHaploClass | Summarize the haplotypic dataset |
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