epistasis.scan: epistasisScan

In cgmisc-team/cgmisc: Various functions useful in computational genetics, e.g. in GWAS

epistasisScan

Description

Scans for epistasis between a specified SNP and all others.

Usage

epistasis.scan(data, SNP, trait.name = NULL, pheno = NULL)

Arguments

data	a gwaa.data class object as used by gwaa.data-class
SNP	The name or index of one marker/SNP in data
trait.name	The name of a phenotype in data
pheno	A vector with phenotypes

Details

The function fits a linear model, including interaction term, between SNP and all other markers in data.

Value

a list with all the models (lm-objects), the p-values of all models and coefficients, and the genomic coordinates of all scanned SNPs.

Author(s)

Simon Forsberg <[e-mail]>

cgmisc-team/cgmisc documentation built on Jan. 3, 2024, 9:52 p.m.