Ginv                    Compute Generalized Inverse of Input Matrix
align.ibd.var           align ibd.var object with relative pairs within
                        pairs.frame object
chibar3.w               Compute mixture proportions, w, for mixture
                        chi-square distribution
create.ibd.dat          Create an ibd.dat object
create.pairs.frame      create a data frame for relative pairs
exact.ibd.var           create an ibd.var object
ibd.df.merlin           Create and return a data.frame with ibd data
                        from merlin
ibd.moments             calculate moments (mean, variance) for
                        simulated ibd vectors
ibdreg                  Regression Methods to Test for Linkage With
                        Covariates
linkage.all             Linkage test statistics for ALL relative pairs
linkage.tests           Linkage tests for relative pair groups
lsConstrain.fit         Minimize Inequality Constrained Mahalanobis
                        Distance
mergeIBD                Merge ibd and covariate data
minpRows                find the rows of a data frame with the minimum
                        pvalue
pairSum                 Combine person-specific covariates to
                        pair-specific
pchibar                 cumulative probability of a chibar distribution
plot.ibdreg             plot an ibdreg object
plot.ibdreg.unexpect    Plot unconstrained and constrained linkage
                        tests to indicate areas of unexpected allele
                        sharing
plot.linkage.all        Plot a linkage.all object
plot.linkage.tests      Plot a linkage.tests object
plotpval                Plot the -log10 of pvalues
print.ibd.var           print an ibd.var object
print.ibdreg            print and ibdreg object
print.linkage.all       Print or summarize a linkage.all object
print.linkage.tests     Print a linkage.tests object
printBanner             Print a nice banner
resources               track system resources
sim.ibd.setup           set-up functions for sim.mark.prop
sim.ibd.var             Create an ibd.var object via simulations using
                        gene-dropping
sim.mark.prop           Simulate Marker Propagation
