Allelic Series Test

Implementation of gene-level rare variant association tests targeting allelic series: genes where increasingly deleterious mutations have increasingly large phenotypic effects. The COding-variant Allelic Series Test (COAST) operates on the benign missense variants (BMVs), deleterious missense variants (DMVs), and protein truncating variants (PTVs) within a gene. COAST uses a set of adjustable weights that tailor the test towards rejecting the null hypothesis for genes where the average magnitude of effect increases monotonically from BMVs to DMVs to PTVs. See McCaw ZR, O’Dushlaine C, Somineni H, Bereket M, Klein C, Karaletsos T, Casale FP, Koller D, Soare TW. (2023) "An allelic series rare variant association test for candidate gene discovery" .


Reference manual

It appears you don't have a PDF plugin for this browser. You can click here to download the reference manual.

install.packages("AllelicSeries")

0.1.1.5 by Zachary McCaw, 2 years ago


https://github.com/insitro/AllelicSeries


Browse source code at https://github.com/cran/AllelicSeries


Authors: Zachary McCaw [aut, cre] , Christoph Klein [ctb] , Thomas Soare [ctb] , Jianhui Gao [ctb] , insitro [cph]


Documentation:   PDF Manual  


BSD_3_clause + file LICENSE license


Imports CompQuadForm, glue, methods, Rcpp, RNOmni, SKAT

Suggests knitr, rmarkdown, testthat, withr

Linking to Rcpp, RcppArmadillo


See at CRAN