pappasd/BIGDAWG: Case-Control Analysis of Multi-Allelic Loci

Data sets and functions for chi-squared Hardy-Weinberg and case-control association tests of highly polymorphic genetic data [e.g., human leukocyte antigen (HLA) data]. Performs association tests at multiple levels of polymorphism (haplotype, locus and HLA amino-acids) as described in Pappas DJ, Marin W, Hollenbach JA, Mack SJ (2016) <doi:10.1016/j.humimm.2015.12.006>. Combines rare variants to a common class to account for sparse cells in tables as described by Hollenbach JA, Mack SJ, Thomson G, Gourraud PA (2012) <doi:10.1007/978-1-61779-842-9_14>.

Getting started

Package details

AuthorDerek Pappas <dpappas@chori.org>, Steve Mack <sjmack@chori.org>, Jill Hollenbach <Jill.Hollenbach@ucsf.edu>
MaintainerSteve Mack <sjmack@chori.org>
LicenseGPL (>= 3)
Version2.3
URL http://tools.immunogenomics.org/ https://github.com/IgDAWG/BIGDAWG
Package repositoryView on GitHub
Installation Install the latest version of this package by entering the following in R:
install.packages("remotes")
remotes::install_github("pappasd/BIGDAWG")
pappasd/BIGDAWG documentation built on Oct. 18, 2019, 7:27 a.m.