convert_snps: Convert SNP data to a list_snps object.

In hruffieux/echoseq: Replication and Simulation of Genetic Variants, Molecular Expression Levels and Other Phenotypic Data

Convert SNP data to a list_snps object.

Description

This function creates a list_snps object from a SNP data matrix supplied as input.

Usage

convert_snps(snps)

Arguments

snps	SNP data matrix without missing values. The entries must be 0, 1 or 2.

Value

An object of class "list_snps".

snps	Matrix containing the original SNP data.
vec_maf	Vector containing the SNP minor allele frequencies.

See Also

generate_snps, replicate_real_snps, convert_phenos, generate_phenos, replicate_real_phenos, generate_dependence

Examples

user_seed <- 123; set.seed(user_seed)
n <- 500; p <- 7500
snps <- matrix(sample(0:2, size = n * p, replace = TRUE), nrow = n)

list_snps <- convert_snps(snps)

hruffieux/echoseq documentation built on Jan. 10, 2024, 10:06 p.m.