Haplotype dataset for power calculation
Example data for SKAT
Read a file with custom weights
SNP-set (Sequence) Kernel Association Test
Adjusted QQ plot
Example data for SKAT
Example data for SKAT_NULL_emmaX
Read Plink FAM and covariates files
SNP-set Kernel Association Test
Obtain significant SNP sets after controlling family wise error rate (FWER)
Get parameters and residuals from the NULL model
SKAT for the combined effect of common and rare variants
SNP set test for binary traits with robust region-based methods
Get parameters and residuals from the null model with incorporating the kinship structure
Example data for SKAT
SNP-set (Sequence) Kernel Association Test for X and Y chromosome variables
Single variant tests for binary traits with Firth and efficient resampling methods
SKAT_Null_Model_MomentAdjust
Get parameters and residuals from the NULL model for small sample adjustment
SNP set test (both common and rare variants) for binary traits with robust region-based methods
SNP set test for binary traits with asymptotic and efficient resampling methods
Internal variables for SSD and functions for other packages
Close SNP set data file (SSD)
Estimate the effective number of tests for Bonferroni correction
Compute a resampling p-value
Get Genotype data from SSD file
Get the logistic weight
Power calculation, continuous traits
Power calculation, Dichotomous traits
Generate SNP set data file (SSD)
Open SNP set data file (SSD)
Get the required sample size to achieve the given power