gscore

list of information about genotype matrix

Glist

stat

vector of individuals used in the analysis

logical if TRUE the genotype markers have been scale to mean zero and variance one

scale

logical if TRUE missing genotypes are set to its expected value (2*af where af is allele frequency)

impute

number of genotype markers used for batch processing

msize

number of cores used in the analysis

ncores

The gscore function is used for genomic predictions based on single marker summary statistics
(coefficients, log-odds ratios, z-scores) and observed genotypes.

Provides an infrastructure for efficient processing of large-scale genetic and phenotypic data including core functions for: 1) fitting linear mixed models, 2) constructing marker-based genomic relationship matrices, 3) estimating genetic parameters (heritability and correlation), 4) performing genomic prediction and genetic risk profiling, and 5) single or multi-marker association analyses.
Rohde et al. (2019) <doi:10.1101/503631>.

gscore: Genomic prediction based on single marker summary statistics

Description

Usage

Arguments