Package index • locater

All functions

FindTargetVars(): Helper for Finding Target Variants for Screening

FitNull(): Fit Null Ordinary Least Squares Model

Haps2Genotypes(): Collapse a matrix of haplotypes to genotypes

TestCachedMarkers(): Test All Cached Markers Fast method for performing single marker testing across all variants stored in the kalis::CacheHaplotypes

TestCladeMat(): Test a Clade Matrix (local relatedness matrix) for association with phenotypes

TestLoci(): Wrapper to Test a Chromosome with LOCATER and kalis

TestMarker(): Perform Single Marker Testing (SMT) on a particular variant

TestSprigs(): Test Sprigs

distill_pivot_par(): Parallelized Stable Distillation for the OLS Model

msse.test(): MSSE Test A p-value combination test that combines three independent p-values (element wise if three vectors are given) while prioritizing the first x, as proposed in our pre-print www.biorxiv.org/content/10.1101/2024.09.30.615852. See Details