% geneticRelatedness.Rnw % ------------------------------------------------------------------------- % What: Vignette on calculation of genetic relatedness between individuals % in the pedigree % $Id: geneticRelatedness.Rnw 1179 2007-04-03 14:13:02Z ggorjan $ % Time-stamp: <2007-04-01 01:08:51 ggorjan> % ------------------------------------------------------------------------- % --- Vignette stuff --- % ------------------------------------------------------------------------- %\VignetteIndexEntry{Calculation of genetic relatedness/relationship between individuals in the pedigree} %\VignettePackage{GeneticsPed} %\VignetteDepends{gdata} %\VignetteKeywords{genetics, relatedness, relationship, kinship, inbreeding, additive, dominance, epistatic} % --- Preamble --- % ------------------------------------------------------------------------- % Document class and general packages % ------------------------------------------------------------------------- \documentclass[fleqn,a4paper]{article} % fleqn - allignment of equations % a4paper appropriate page size \usepackage[authoryear]{natbib} % Bibliography - Natbib \newcommand{\SortNoop}[1]{} % Sort command for bib entries \usepackage{hyperref} \hypersetup{% pdftitle={Calculation of genetic relatedness/relationship between individuals in the pedigree}, pdfauthor={Gregor Gorjanc and David A. Henderson}, pdfkeywords={genetics, relatedness, relationship, kinship, inbreeding, additive, dominance, epistatic} } \newcommand{\email}[1]{\href{mailto:#1}{#1}} % Email command \makeatletter % Allow the use of @ in command names % Paragraph and page % ------------------------------------------------------------------------- \usepackage{setspace} % Line spacing \onehalfspacing \setlength\parskip{\medskipamount} \setlength\parindent{0pt} % --- Lyx Tips&Tricks: better formatting, less hyphenation problems --- \tolerance 1414 \hbadness 1414 \emergencystretch 1.5em \hfuzz 0.3pt \widowpenalty=10000 \vfuzz \hfuzz \raggedbottom % Page size \usepackage{geometry} \geometry{verbose,a4paper,tmargin=3.0cm,bmargin=3.0cm,lmargin=2.5cm, rmargin=2.5cm,headheight=20pt,headsep=0.7cm,footskip=12pt} \makeatother % Cancel the effect of \makeatletter % R and friends % ------------------------------------------------------------------------- \newcommand{\program}[1]{{\textit{\textbf{#1}}}} \newcommand{\code}[1]{{\texttt{#1}}} % http://www.bioconductor.org/develPage/guidelines/vignettes/vignetteGuidelines.pdf \newcommand{\Robject}[1]{{\texttt{#1}}} \newcommand{\Rfunction}[1]{{\texttt{#1}}} \newcommand{\Rpackage}[1]{{\textit{#1}}} \newcommand{\Rclass}[1]{{\textit{#1}}} \newcommand{\Rmethod}[1]{{\textit{#1}}} \newcommand{\Rfunarg}[1]{{\textit{#1}}} \newcommand{\R}{\program{R}} \usepackage{Sweave} % Sweave \SweaveOpts{strip.white=all, keep.source=TRUE} <>= options(width=85) @ % --- Document --- % ------------------------------------------------------------------------- \begin{document} \title{Calculation of genetic relatedness/relationship between individuals in the pedigree} \author{ Gregor Gorjanc\\ \email{gregor.gorjanc@bfro.uni-lj.si},\\ David A. Henderson\\ \email{dnadave@insightful.com} } \maketitle \section*{Introduction} \section*{?} \subsection*{Kinship?} \cite{Wright:1922}, Malecot 1948, Emik and Terill 1949 \cite{Falconer:1996} \cite{LynchWalsh:1998} \cite{Meuwissen:1992} \cite{Boichard:2002} \cite{Sargolzaei:2005} \cite{Oliehoek:2006} on various relatedness estimators between individuals in general i.e. panmictic and structured populations. <>= 1+1 @ \bibliographystyle{apalike} \bibliography{library} \end{document} % ------------------------------------------------------------------------- % geneticRelatedness.Rnw ends here