noia-tutorial

Packagenoia: tutorialArnaud Le RouzicAugust 5, 2010The package noia is an implementation for R of the Natural and Orthogonal InterAction model(NOIA), a statistical framework aiming at estimating and manipulating genetic effects of quantitative char-acters. This page is an informal tutorial describing the practical use of the software, as well as some basicconcepts in quantitative genetics modeling. It comes as a complement of several sources of information:´ The statistical model is originally described in Alvarez-Castro & Carlborg (2007) Genetics 176:1151-1167.´ The application of the model to read data by least square regression is the topic of Alvarez-Castro,Le Rouzic & Carlborg (2008) PLoS Genet. 4:e1000062.´ The implementation of the model in a software is described in Le Rouzic & Alvarez-Castro (2008)Evol. Bioinform. 4 225-235.The last version of the package can be downloaded on the official CRAN site (http://cran.r-project.org/web/packages/noia/index.html), where the reference manual is also avail-able. More information about R in general, including manuals and tutorials, can be found on http://www.r-project.org.For clarity, this tutorial is devoid of scientific citations: these can be found in the references above.Contents1 Context 22 Modelsofgeneticeffects 22.1 A simple example in haploid species . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 22.2 Genetic effects depend on the reference genotype . . . . . . . . . . . . . . . . . ...