eqtl_simulator_h5: Simulating eQTL phenotypes.

In jinhyunju/eQTLtools: What the package does (one line)

Description

Generates a phenotype matrix based on a given input genotype matrix.

Usage

eqtl_simulator_h5(input.geno = NULL, n.pheno, n.eqtl, simulation.id,
  output.path = NULL, coeff.mean = 2.5, n.sim = 5,
  cis.trans.ratio = 0.7, trans.impact = 0.1, trans.nerf = 0.7,
  hidden.factor = TRUE, factors = NULL, factor.coeff = NULL,
  hf.frac = 0.2, effect.size = 2, factor.type = NULL)

Arguments

n.pheno	Number of phenotypes to simulate
n.eqtl	Number of eQTL pairs
cis.trans.ratio	Ratio between cis and trans hits
trans.impact	Maximum percentage of total genes a trans hit can influence.
trans.nerf	Ratio of trans effect size compared to cis-hits. Accounts for the observation that trans hits usually have smaller effect sizes.
genotypes	A genotype matrix with dimensions N x g.
coeff.sample	A vector from which the effect sizes (coefficiens) are going to be sampled from.

Value

Phenotype matrix with dimensions N x n.pheno

jinhyunju/eQTLtools documentation built on May 19, 2019, 10:35 a.m.