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NGS-intro-course
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a3b28756
Commit
a3b28756
authored
9 years ago
by
Laros
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command_practical/command_practical.tex
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a3b28756
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@@ -182,7 +182,7 @@ To chain processes we can use the pipe (\lstinline{|}) symbol. The file
...
@@ -182,7 +182,7 @@ To chain processes we can use the pipe (\lstinline{|}) symbol. The file
mitochondial DNA.
mitochondial DNA.
\medskip
\medskip
Navigate t
he
the directory named
\lstinline
{
bowtie
_
index
}
.
Navigate t
o
the directory named
\lstinline
{
bowtie
_
index
}
.
\begin{lstlisting}
\begin{lstlisting}
$
cd exercise
/
bowtie
_
index
$
cd exercise
/
bowtie
_
index
\end
{
lstlisting
}
\end
{
lstlisting
}
...
@@ -246,11 +246,6 @@ small human short read dataset. The data will be inspected for quality, aligned,
...
@@ -246,11 +246,6 @@ small human short read dataset. The data will be inspected for quality, aligned,
checked for variants and annotated.
checked for variants and annotated.
\medskip
\medskip
% Copy files
\subsection
{
About the data
}
We have precompiled a small human test set of short reads.
\medskip
% Quality control
% Quality control
\subsection
{
Quality control with FastQC
}
\subsection
{
Quality control with FastQC
}
Every tool which is system wide available can simply be run by typing the name
Every tool which is system wide available can simply be run by typing the name
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