%\VignetteIndexEntry{Pairwise Sequence Alignments} %\VignetteKeywords{DNA, RNA, Sequence, Biostrings, Sequence alignment} %\VignettePackage{Biostrings} % % NOTE -- ONLY EDIT THE .Rnw FILE!!! The .tex file is % likely to be overwritten. % \documentclass[10pt]{article} \usepackage{times} \usepackage{hyperref} \textwidth=6.5in \textheight=8.5in %\parskip=.3cm \oddsidemargin=-.1in \evensidemargin=-.1in \headheight=-.3in \newcommand{\scscst}{\scriptscriptstyle} \newcommand{\scst}{\scriptstyle} \newcommand{\R}{{\textsf{R}}} \newcommand{\code}[1]{{\texttt{#1}}} \newcommand{\term}[1]{{\emph{#1}}} \newcommand{\Rpackage}[1]{\textsf{#1}} \newcommand{\Rfunction}[1]{\texttt{#1}} \newcommand{\Robject}[1]{\texttt{#1}} \newcommand{\Rclass}[1]{{\textit{#1}}} \newcommand{\Rmethod}[1]{{\textit{#1}}} \newcommand{\Rfunarg}[1]{{\textit{#1}}} \bibliographystyle{plainnat} \begin{document} %\setkeys{Gin}{width=0.55\textwidth} \title{Pairwise Sequence Alignments} \author{Patrick Aboyoun \\ Gentleman Lab \\ Fred Hutchinson Cancer Research Center \\ Seattle, WA} \date{\today} \maketitle This vignette and all the tools described in it have moved to the \Rpackage{pwalign} package. \end{document}