mppData_GE: Example 'mppData' object

In vincentgarin/mppR: Multi-Parent Population QTL Analysis

Example mppData object

Description

Example mppData object representing a subset from the maize EU-NAM Flint population (Bauer et al. 2013, Lehermeier et al. 2014, Giraud et al. 2014).

Usage

data(mppData_GE)

Format

mppData

Details

Sample data from the maize EU-NAM Flint population. The genotype data were obtained from http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE50558. The genotypes come from the five following crosses: (UH007 x D152), (UH007 x F03802), (UH007 x F2), (UH007 x F283), and (UH007 x DK105). We selected 100 markers randomly spread on chromosomes five and six. The genetic map was downloaded here http://maizegdb.org/data_center/reference?id=9024747.

The phenotypic data represent the within environment adjusted means for dry matter yield (DMY) calculated at La Coruna (CIAM), at Roggenstein (TUM), at Einbeck (KWS), and at Ploudaniel (INRA_P). The raw plot data were obtained here: http://www.genetics.org/content/198/1/3/suppl/DC1.

References

Bauer, E., Falque, M., Walter, H., Bauland, C., Camisan, C., Campo, L., ... & Altmann, T. (2013). Intraspecific variation of recombination rate in maize. Genome biology, 14(9), R103.

Giraud, H., Lehermeier, C., Bauer, E., Falque, M., Segura, V., Bauland, C., ... & Schipprack, W. (2014). Linkage disequilibrium with linkage analysis of multiline crosses reveals different multiallelic QTL for hybrid performance in the flint and dent heterotic groups of maize. Genetics, 198(4), 1717-1734.

Lehermeier, C., Krämer, N., Bauer, E., Bauland, C., Camisan, C., Campo, L., ... & Moreau, L. (2014). Usefulness of multiparental populations of maize (Zea mays L.) for genome-based prediction. Genetics, 198(1), 3-16.

Examples

  data(mppData_GE)

vincentgarin/mppR documentation built on March 13, 2024, 7:30 p.m.