data-M: Cleaned numeric SNP marker data used in thesis

In digiYozhik/msc_thesis: Functions to support master thesis

Description

Cleaned numeric SNP marker data used in thesis

Usage

M

Details

The data comes from a field trial that is part of a cotton breeding program. The trial was set up in 2012 across 7 locations in the US Cotton Belt. At every location the same bi-parental BC_3F_2 was grown together with a number of entries serving as checks. Genotypes were obtained for the entries on one locations from a set of genome–wide spread SNP markers which were scored in a bi-allelic way. After quality control, genotypes for 299 cross-entries were obtained for 1088 SNP markers. The observed genotype matrix is converted to allelic content by counting the number of B alleles for every cell in the genotype matrix. When aligning the phenotype and genotype information with respect to the entries, we reduce the number of entries to 296 by discarding genotyped entries that have completely unobserved phenotypes.

Author(s)

Ruud Derijcker

Examples

data(M)
str(M)

digiYozhik/msc_thesis documentation built on May 14, 2019, 5:16 p.m.