muga.snps.to.keep


  SNPs to use for genotyping and mapping on the MUGA. These are a combination of one culled by UNC due to poor performance or uncertain location and ones culled by JAX based on low intensity values.


datasets

DOQTL is a quantitative trait locus (QTL) mapping pipeline designed for Diversity Outbred mice and other multi-parent outbred populations. The package reads in data from genotyping arrays and perform haplotype reconstruction using a hidden Markov model (HMM). The haplotype probabilities from the HMM are then used to perform linkage mapping. When founder sequences are available, DOQTL can use the haplotype reconstructions to impute the founder sequences onto DO genomes and perform association mapping.

Daniel Gatti

DOQTL

Genotyping and QTL Mapping in DO Mice

muga.snps.to.keep function

A character vector with MUGA SNP IDs to use when genotyping or mapping.

Format

SNPs to use for genotyping and mapping on the MUGA. These are a combination of one culled by UNC due to poor performance or uncertain location and ones culled by JAX based on low intensity values.

muga.snps.to.keep: SNPs to use for genotyping and mapping on the MUGA

Description

Usage

Arguments

Format

Examples