RNAseqRare: RNAseqRare

In SharonLutz/RNAseqRare: Runs the RNAseqRare Function

Description

performs expression quantitative trait loci (eQTL) analyses of rare variants for RNA-seq data.

Usage

RNAseqRare(x, y, z = NULL)

Arguments

x	is a matrix of rare variants in the region.
y	is the count for the RNAseq data.
z	is a matrix of covariates to adjust for.

Value

p-value	The significance from SKAT with normalized count data.
matrix	negative binomial with sum of rare variants.
matrix	negative binomial with indicator for rare variants.

Warning

library(SKAT) and library(MASS) are needed to run this function.

Author(s)

Sharon Lutz, Annie Thwing

References

Lutz SM, Thwing A, Fingerlin TE. (2017) A Statistical Framework for Rare Variant Associations with RNA-seq Data. Statistics in Medicine. (In preparation)

SharonLutz/RNAseqRare documentation built on Oct. 7, 2019, 6:28 a.m.