testThreewayInteraction: Test for threeway interactions between two features, genotype...

In kauralasoo/seqUtils:

Description

The two features (master and dependent) are assumed to be regulated by the same causal genetic variant.

Usage

testThreewayInteraction(feature_pairs, trait_matrix, sample_metadata,
  vcf_file, model0, model1, p_only = TRUE)

Arguments

feature_pairs	data frame with master_id, dependent_id and snp_id
trait_matrix	expression or chromatin accessibility matrix
sample_metadata	data frame with sample metadata and covariates
vcf_file	VCF file from gdsToMatrix() function
model0	Null model
model1	Model of interest that is compared to the null model
p_only	Specifies return type

Value

If TRUE, then only p-value is returned, otherwise returns a list of model data and fits.

kauralasoo/seqUtils documentation built on May 20, 2019, 7:42 a.m.