HardyWeinberg-package |
Graphical tests for Hardy-Weinberg equilibrium |
af |
Function to compute allele frequencies |
Alzheimer |
Genotype frequencies for 70 SNPs related to Alzheimer's disease |
fisherz |
Fisher's z transformation |
GenerateSamples |
Generate genotypic compositions |
HapMapCHBChr1 |
Genotype frequencies for 225 SNPs on chromosome 1 of the CHB population. |
HardyWeinberg |
Graphical tests for Hardy-Weinberg equilibrium |
HWAlltests |
Perform all tests for Hardy-Weinberg equilibrium |
HWAlr |
Compute additive log-ratio transformation |
HWAlrPlot |
Plot genetic markers in additive log-ratio coordinates |
HWChisq |
Chi square tests for Hardy Weinberg equilibrium |
HWChisqMat |
Matrix version of HWChisq |
HWClr |
Compute the centred log-ratio transformation |
HWClrPlot |
Plot genetic markers in centred log-ratio coordinates |
HWCondProbAB |
Compute probability of a genotypic sample |
HWD |
Compute disequilibrium statistic D |
HWData |
Generate genetic marker data in or out of Hardy-Weinberg Equilibrium |
HWExact |
Exact test for Hardy-Weinberg equilibrium |
HWExactMat |
Matrix version of HWExact |
HWf |
Computation of inbreeding coefficient |
HWGenotypePlot |
Scatter plot of the genotype frequencies |
HWIlr |
Compute isometric log ratio coordinates. |
HWIlrPlot |
Plot bi-allelic genetic markers in isometric log ratio coordinates |
HWLratio |
Likelihood ratio test for Hardy Weinberg equilibrium |
HWMissing |
Test a bi-allelic marker for Hardy-Weinberg equilibrium in the presence of missing genotype information. |
HWPerm |
Permutation test for Hardy-Weinberg equilibrium |
HWPower |
Compute the power of a test for Hardy-Weinberg equilibrium. |
HWQqplot |
A Q-Q plot for Hardy-Weinberg equilibrium |
HWTernaryPlot |
Ternary plot with the Hardy-Weinberg acceptance region |
ifisherz |
Inverse Fisher z transformation |
mac |
Compute the minor allele count. |
maf |
Function to compute minor allele frequencies |
MakeCounts |
Create genotype counts from bi-allelic marker data |
MakeFactor |
Make factors from genotyping data |
Markers |
SNP data and intensities |
Mourant |
Genotype frequencies for blood group locus MN |
recode |
Recode genotype information |
UniqueGenotypeCounts |
Extract unique genotypic compositions from a matrix |
vaf |
Computes the sample variance of the minor allele frequencies |