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| HapEstXXR-package | Mulit-locus stepwise regression (MSR) |
| allele1to2 | Convert genotype matrix from two different types |
| allele1toR | Convert genotype matrix from two different types |
| allele2to1 | Convert genotype matrix from two different types |
| allele2toR | Convert genotype matrix from two different types |
| alleleRto1 | Convert genotype matrix from two different types |
| alleleRto2 | Convert genotype matrix from two different types |
| catt | Cochrane armitage trend test (CATT) for SNP genotypes |
| coding.baseline.allele | Standardization of coding alleles |
| dec2bin | Decimal To Binary Conversion |
| hapest.caco | single haplotype test |
| hapest.gaussian | single haplotype test |
| HapEstXXR | Mulit-locus stepwise regression (MSR) |
| itegeppXXR | Haplotype estimation routine for single individual data |
| maf | Minor alle frequencies |
| makeHaploviewInputFile | Make Haploview input files |
| makePlinkInputFile | Make PLINK input files |
| msr | Multi-locus stepwise regression |
| msr.binomial.forward.adjusted | Multi-locus stepwise regression |
| msr.binomial.forward.unadjusted | Multi-locus stepwise regression |
| msr.binomial.haplotype.test.adjusted | Multi-locus stepwise regression |
| msr.binomial.haplotype.test.unadjusted | Multi-locus stepwise regression |
| msr.families.unadjusted | Multi-locus stepwise regression |
| msr.gaussian.forward.adjusted | Multi-locus stepwise regression |
| msr.gaussian.forward.unadjusted | Multi-locus stepwise regression |
| msr.gaussian.haplotype.test.adjusted | Multi-locus stepwise regression |
| msr.gaussian.haplotype.test.unadjusted | Multi-locus stepwise regression |
| multi.snp.test | Internal function used for multi-locus associations tests. |
| order.families | Ordering of nuclear family data |
| powerset | Generating power set of a set |
| read.data | Read data from different input files |
| read.haploview | Read a haploview dataset |
| single.haplotype.test | single haplotype test |
| single.haplotype.test.binomial | single haplotype test |
| single.haplotype.test.families | single haplotype test |
| single.haplotype.test.gaussian | single haplotype test |
| single.haplotype.test.survival | single haplotype test |
| single.snp.test | Regression analysis with single SNP genotypes as independent variable |
| single.snp.test.binomial | Regression analysis with single SNP genotypes as independent variable |
| single.snp.test.casecohort | Regression analysis with single SNP genotypes as independent variable |
| single.snp.test.casecohort.prentice | Regression analysis with single SNP genotypes as independent variable |
| single.snp.test.families | Regression analysis with single SNP genotypes as independent variable |
| single.snp.test.gaussian | Regression analysis with single SNP genotypes as independent variable |