Commit d354c89e authored by Mathieu Giraud's avatar Mathieu Giraud

tutorial: day 1, mise en page, 11pt

parent 86524fd3
Pipeline #68933 passed with stage
in 5 seconds
......@@ -9,7 +9,7 @@
\usepackage{hyperref}
\newlength\myleftmargin
\setlength{\myleftmargin}{2cm}
\usepackage[margin=3.2cm, top=2cm, bottom=2cm,left=\myleftmargin,a4paper]{geometry}
\usepackage[margin=3.5cm, top=2cm, bottom=2cm,left=\myleftmargin,a4paper]{geometry}
\usepackage{graphicx}
\usepackage{caption}
\usepackage{array}
......@@ -46,7 +46,7 @@
\end{minipage}
\hfill
\begin{minipage}[c]{.2\textwidth}
\includegraphics[width=\textwidth]{grid-0}
%\includegraphics[width=\textwidth]{grid-0}
\end{minipage}
}
\makeatother
\documentclass[10pt]{article}
\documentclass[11pt]{article}
\usepackage[english]{babel}
\input{common-headers}
\title{Mastering the Vidjil web application:\\ Browsing and analysing clones
\title{Mastering the Vidjil web application \\ Day 1 -- Browsing and analysing clones
}
\widowpenalty10000
\clubpenalty10000
\begin{document}
\maketitle
......@@ -18,6 +21,12 @@ or by any other algorithm.}
\bigskip
\centerline{\includegraphics[width=.8\textwidth]{../../../vdj/vdj/doc/com/screenshots/vidjil-11-TRG-combined.png}}
\bigskip
\question{Connect to the public server (\url{https://app.vidjil.org}), either with your account
or the demo account (\texttt{demo@vidjil.org} / \texttt{demo}),
select the \textit{Demo LIL-L3 (tutorial)} patient, and click on the bottom right link, \com{see results: multi-inc-xxx}.
......@@ -38,7 +47,10 @@ In the following sections, we focus on the diagnosis sample.
% how to view and filter clones and
The section~\ref{sec:tracking} will deal with the comparison of several samples.
\input{tutorial-quality}
\input{tutorial-clones}
\bigskip
......@@ -47,6 +59,7 @@ The section~\ref{sec:tracking} will deal with the comparison of several samples.
\centerline{\includegraphics[width=.5\textwidth]{./grid-1}}
\end{document}
\newpage
......
......@@ -23,8 +23,11 @@ The lines starting with \texttt{UNSEG} display the reasons why some reads have
not been analyzed.
You can see what those reasons mean in the online documentation of the
algorithm: \href{http://www.vidjil.org/doc/vidjil-algo\#unsegmentation-causes}{vidjil.org/doc/vidjil-algo\#unsegmentation-causes
}
algorithm:
\centerline{\href{http://www.vidjil.org/doc/vidjil-algo\#unsegmentation-causes}{vidjil.org/doc/vidjil-algo\#unsegmentation-causes
}}
\question{What are the major causes explaining the reads have not been
analyzed? Also have a look at the average read lengths of these causes. Do
you notice something regarding the average read lengths?}
......
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