GWAS-class: GWAS-class

In aaronwolen/bingd: Bayesian integration of genomic data

Description

The GWAS class is a container for representing the genetic markers used in a genome-wide association study (GWAS), along with their corresponding summary statistics.

Details

The GWAS class is a GRanges object with marker and pvalue metadata columns. In addition, a GWAS object must also contain a metadata column indicating the direction of the minor allele's effect, which can be provided as one of the following:

• zscore z-scores

• or Odds ratios

• beta Beta values (i.e., the regression coefficient)

Constructor

Use as.GWAS to construct a GWAS object from either a data.frame or GRanges object

Accessors

In the following code snippets, x is a GWAS object.

pvalue(x) retrieve GWAS markers

pvalue(x) retrieve marker pvalues

zscore(x) retrieve marker z-scores

aaronwolen/bingd documentation built on May 10, 2019, 4:04 a.m.