gap

AE model using nuclear family trios

Bayesian false-discovery probability

Effect-size plot

False-positive report probability

LD statistics for two diallelic markers

LD statistics for two multiallelic markers

Mixed modeling with genetic relationship matrices

forest plot as R/meta's forest for METAL outputs

Functions for single nucleotide polymorphisms (SNPs)

Test/Power calculation for mediating effect

Regional association plot

Obtain correlation coefficients and their variance-covariances

Bradley-Terry model for contingency table

Power and sample size for case-cohort design

Chow's test for heterogeneity in two regressions

score statistics for testing genetic linkage of quantitative trait

Sample size for family-based linkage and association design

Internal functions for gap

Genetic analysis package

Gene counting for haplotype analysis

genomic control

genomic control based on p values

Permutation tests using GENECOUNTING

Gene counting for haplotype analysis

Kinship coefficient and genetic index of familiality

Heritability estimation according to twin correlations

Heritability estimation based on genomic relationship matrix using JAGS

Haplotype reconstruction

Gene counting for haplotype analysis

Score statistics for association of traits with haplotypes

Haplotype trend regression

Hardy-Weinberg equlibrium test for a multiallelic marker

A likelihood ratio test of population Hardy-Weinberg equilibrium for case-control studies

Hardy-Weinberg equilibrium test using MCMC

Hardy-Weinberg equlibrium test for a multiallelic marker using JAGS

kinship matrix for simple pedigree

Haplotype frequency estimation based on a genotype table of two multiallelic markers

A function to prepare pedigrees in post-MAKEPED format

Sample size calculation for mediation analysis

Meta-analysis of p values

Fixed and random effects model for meta-analysis

Manhattan plot

Truncated Manhattan plot

Manhattan plot with annotations

multiple imputation analysis for hap

Transmission/disequilibrium test of a multiallelic marker

Transmission/disequilibrium test of a multiallelic marker by Bradley-Terry model

Means and variances under 1- and 2- locus (biallelic) QTL model

Multivariate meta-analysis based on generalized least squares

Power for population-based association design

Power for case-control association design

Converting pedigree(s) to dot file(s)

Probability of familial clustering of disease

Probability of familial clustering of disease

Preparing weight for GENECOUNTING

Plot haplotype frequencies versus haplotype score statistics

Print a hap.score object

Quantile-comparison plots

Q-Q plot for uniformly distributed random variable

A utility function to read ms output

Statistics for 2 by K table

Sentinel identification from GWAS summary statistics

Power calculation for two-stage case-control design

Whittemore-Halpern scores for allele-sharing