%\VignetteIndexEntry{genefu An Introduction (HowTo)} %\VignetteDepends{survcomp, mclust} %\VignetteSuggests{GeneMeta} %\VignetteImports{amap, gplots} %\VignetteKeywords{Breast Cancer, Survival Analysis} %\VignettePackage{genefu} %documentclass[12pt, a4paper]{article} \documentclass[12pt]{article} \usepackage{amsmath} \usepackage{times} \usepackage{hyperref} \usepackage[numbers]{natbib} \usepackage[american]{babel} \usepackage{authblk} %\renewcommand\Authfont{\scshape \renewcommand\Affilfont{\itshape\small} \usepackage{Sweave} \renewcommand{\topfraction}{0.85} \renewcommand{\textfraction}{0.1} %\usepackage{tikz} \textwidth=6.2in \textheight=8.5in %\parskip=.3cm \oddsidemargin=.1in \evensidemargin=.1in \headheight=-.3in %------------------------------------------------------------ % newcommand %------------------------------------------------------------ \newcommand{\scscst}{\scriptscriptstyle} \newcommand{\scst}{\scriptstyle} \newcommand{\Robject}[1]{{\texttt{#1}}} \newcommand{\Rfunction}[1]{{\texttt{#1}}} \newcommand{\Rclass}[1]{\textit{#1}} \newcommand{\Rpackage}[1]{\textit{#1}} \newcommand{\Rexpression}[1]{\texttt{#1}} \newcommand{\Rmethod}[1]{{\texttt{#1}}} \newcommand{\Rfunarg}[1]{{\texttt{#1}}} \begin{document} %------------------------------------------------------------ \title{\Rpackage{genefu}: a package for breast cancer gene expression analysis} %------------------------------------------------------------ \author[1,2,3]{Benjamin Haibe-Kains} \author[1,5]{Markus Schr\"{o}der} \author[4]{Christos Sotiriou} \author[3]{Gianluca Bontempi} \author[1,2]{John Quackenbush} \affil[1]{Computational Biology and Functional Genomics Laboratory, Dana-Farber Cancer Institute, Harvard School of Public Health} \affil[2]{Center for Cancer Computational Biology, Dana-Farber Cancer Institute} \affil[3]{Machine Learning Group, Universit\'{e} Libre de Bruxelles} \affil[4]{Breast Cancer Translational Research Laboratory, Institut Jules Bordet, Universit\'{e} Libre de Bruxelles} \affil[5]{Computational Genomics, Center for Biotechnology, Bielefeld University, Germany} \SweaveOpts{highlight=TRUE, tidy=TRUE, keep.space=TRUE, keep.blank.space=FALSE, keep.comment=TRUE} %<>= %library(pgfSweave) %setCacheDir("cache") %options(keep.source=TRUE) %@ \maketitle \tableofcontents %------------------------------------------------------------ \section{Introduction} %------------------------------------------------------------ The \Rpackage{genefu} package is providing relevant functions for gene expression analysis, especially in breast cancer. \newpage %------------------------------------------------------------ \section{Session Info} %------------------------------------------------------------ <>== toLatex(sessionInfo()) @ \end{document}