\usepackage{Sweave}
\usepackage{color, graphics}
\usepackage{latexsym, amsmath, amssymb}

%% simple macros
\newcommand{\software}[1]{\textsl{#1}}
\newcommand\R{\textsl{R}}
\newcommand\Bioconductor{\textsl{Bioconductor}}
\newcommand\Rpackage[1]{{\textsl{#1}\index{#1 (package)}}}
\newcommand\Biocpkg[1]{%
  {\href{http://bioconductor.org/packages/release/bioc/html/#1.html}%
    {\textsl{#1}}}%
  \index{#1 (package)}}
\newcommand\Rpkg[1]{%
  {\href{http://cran.fhcrc.org/web/packages/#1/index.html}%
    {\textsl{#1}}}%
  \index{#1 (package)}}
\newcommand\Biocdatapkg[1]{%
  {\href{http://bioconductor.org/packages/release/data/experiment/html/#1.html}%
    {\textsl{#1}}}%
  \index{#1 (package)}}
\newcommand\Robject[1]{{\small\texttt{#1}}}
\newcommand\Rclass[1]{{\textit{#1}\index{#1 (class)}}}
\newcommand\Rfunction[1]{{{\small\texttt{#1}}\index{#1 (function)}}}
\newcommand\Rmethod[1]{{\texttt{#1}}}
\newcommand\Rfunarg[1]{{\small\texttt{#1}}}
\newcommand\Rcode[1]{{\small\texttt{#1}}}

%% \AtBeginSection[]
%% {
%%   \begin{frame}<beamer>{Outline}
%%     \tableofcontents
%%   \end{frame}
%% }