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| allele.recode | Recode allele values to integer ranks |
| banner | Print a nice banner |
| gcode | Numeric Code for Genotypes |
| geno.recode | Recode Genotypes |
| Ginv | Compute Generalized Inverse of Input Matrix |
| haplo.em | EM Computation of Haplotype Probabilities |
| haplo.enum | Enumerate all possible pairs of haplotypes that are consistent with a set of un-phased multilocus markers |
| haplo.hash | Integer Rank Codes for Haplotypes |
| haplo.score | Score Statistics for Association of Traits with Haplotypes |
| haplo.score.glm | Compute haplotype score statistics for GLM |
| haplo.score.podds | Compute Haplotype Score Statistics for Ordinal Traits with Proportional Odds Model |
| hla.demo | HLA Gene Variantion and Serologic Response to Measles Vaccination |
| locator.haplo | Find Location from Mouse Clicks and Print Haplotypes on Plot |
| plot.haplo.score | Plot Haplotype Frequencies versus Haplotype Score Statistics |
| print.haplo.score | Print a haplo.score object |
| ungcode | Uncode Numeric Genotype Codes to Alleles |