Spellchecked practical one

practical_one/practical_one.tex

@@ -76,7 +76,7 @@ Now, create a directory and a text file using \texttt{nano}.
   $ nano file1.txt
 \end{lstlisting}
 
-We have now opened the \texttt{nano} text editor and are editint the content
+We have now opened the \texttt{nano} text editor and are editing the content
 of the file \texttt{file1.txt}. Try to create a \texttt{FASTA} formatted file,
 something like:
 
@@ -251,7 +251,7 @@ checked for variants and annotated.
 \subsection{Get the input}
 First we must fetch the course data for the practicals. We have precompiled a
 small human test set of short reads in an online repository. Use the next
-command to pull eveything from that repository for you to work with.
+command to pull everything from that repository for you to work with.
 \medskip 
 
 How this exactly works is not important for now but if things work as
@@ -269,14 +269,14 @@ providing everything you need to continue.
 \medskip
 
 % Quality control
-\subsection{Quality control with Fastqc}
-Every tool which is systemwide available can simply be run by typing the name
-of the tool. Try typing part of the toolname and hit TAB twice. It will
-automatically autocomplete the name or give suggestions if it's not sure yet.
+\subsection{Quality control with FastQC}
+Every tool which is system wide available can simply be run by typing the name
+of the tool. Try typing part of the tool name and hit TAB twice. It will
+automatically auto-complete the name or give suggestions if it's not sure yet.
 \medskip
 
 Most tools will show some documentation if you start them without any options.
-If this doesn't happed you have to usually add the -h which stands for help.
+If this doesn't happen you have to usually add the -h which stands for help.
 \medskip
 
 \begin{itemize}
@@ -337,7 +337,7 @@ name for the output as last option.
 \medskip
 
 For downstream purpose we want one more option, namely the output to be in SAM
-format. We achive this by adding the -S parameter. Note these optional
+format. We achieve this by adding the -S parameter. Note these optional
 arguments come first before the others. (As you can see in the help)
 \medskip
 
@@ -360,7 +360,7 @@ less disk space! Let's convert the file.
 The first option we need to give Samtools is which function to use, in our
 case we use ``view''. After that we give ``-Sb'', basically telling Samtools that
 our input is SAM and we would like BAM output. Finally we redirect the output
-to a new outputfile using the greater than sign.
+to a new output file using the greater than sign.
 \medskip
 
 For many purposes it is convenient, and often even required, to have your BAM
@@ -370,7 +370,7 @@ useful. To sort the file, we simply call Samtools sort. The first argument is
 the input file, followed by the output file name.
 \medskip
 
-Note that we omit the .bam extension for the output filename. This will be done
+Note that we omit the .bam extension for the output file name. This will be done
 by Samtools.
 \medskip
 
@@ -405,7 +405,7 @@ As explained, the mpileup data will be fed directly into bcftools. At this
 point bcftools will go over the pileup format, picks out the variants and
 describes them into a bcf file. (A binary format of the vcf format.) In the next
 step we will convert the bcf file to a readable vcf file while at the same time
-we apply a filterstep from vcfutils.
+we apply a filter step from vcfutils.
 \medskip
 
 \begin{itemize}