Commit 47bdab9b authored by bow's avatar bow
Browse files

Add PDF report templates

parent 586c9070
\documentclass[a4paper,12pt]{article}
\usepackage[a4paper,margin=1in]{geometry}
\usepackage[T1]{fontenc}
\usepackage[usenames,dvipsnames]{xcolor}
\usepackage{longtable}
\usepackage{graphicx}
\usepackage{subfig}
\usepackage{listings}
\usepackage{verbatim}
\usepackage{multirow}
\usepackage{url}
\usepackage{grffile}
\usepackage[superscript]{cite}
% must be located here, so we can handle filenames with underscores
\newcommand{\UnderscoreCommands}{\do\IfFileExists \do\verbatiminput%
\do\verbatimtabinput \do\citeNP \do\citeA \do\citeANP \do\citeN%
\do\shortcite \do\shortciteNP \do\shortciteA \do\shortciteANP%
\do\shortciteN \do\citeyear \do\citeyearNP%
}
\usepackage[strings]{underscore}
\usepackage{fancyhdr}
\usepackage{hyperref}
\setlength{\tabcolsep}{20pt}
\renewcommand{\arraystretch}{1.3}
\renewcommand{\familydefault}{\sfdefault}
% requires the titling package, for subtitles
%\newcommand{\subtitle}[1]{
% \posttitle{
% \par\end{center}
% \begin{center}\large#1\end{center}
% \vskip0.5em}}
\pagestyle{fancy}
\setlength{\headheight}{15.2pt}
\fancyhf{}
\fancyhead[LE,RO]{\thepage}
\fancyhead[RE]{\textit{\nouppercase{\leftmark}}}
\fancyhead[LO]{\textit{\nouppercase{\rightmark}}}
\begin{document}
\setlength{\parindent}{0in}
\title{\Huge Gentrap: Generic Transcriptome Analysis Pipeline}
\author{LUMC Sequencing Analysis Support Core}
\maketitle
\begin{center}
{\LARGE Run Report v((( gentrap.version )))}
\end{center}
\begin{figure}[h!]
\centering
\includegraphics[width=0.8\textwidth]{((( gentrap.logo )))}
\end{figure}
\thispagestyle{empty}
\clearpage
\tableofcontents
\clearpage
\section{Introduction}
\label{sec:intro}
This document outlines the results obtained from running Gentrap, a generic
pipeline for transcriptome analysis.
% TODO: contents ~ preferrably in modules!
((* include "test.tex" *))
\section{About Gentrap}
\label{apx:about}
The Generic Transcript Analysis Pipeline (Gentrap) aims to to be a
generic pipeline for analyzing transcripts from RNA-seq experiments.
Gentrap was developed by Wibowo Arindrarto (\href{mailto:w.arindrarto@lumc.nl}{w.arindrarto@lumc.nl})
based on raw scripts written by Jeroen Laros
(\href{mailto:j.f.j.laros@lumc.nl}{j.f.j.laros@lumc.nl}) and
Peter-Bram 't Hoen
(\href{mailto:p.a.c._t_hoen@lumc.nl}{p.a.c._t_hoen@lumc.nl}).
\indent
Cover page image: T7 RNA Polymerase and a dsDNA template (PDB ID \texttt{1msw}).
Created by Thomas Splettstoesser, taken from
\href{http://commons.wikimedia.org/wiki/File:T7_RNA_polymerase.jpg}{Wikimedia Commons}.
\end{document}
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