Merge pull request #3 from csc-training/IonTorrentJYU23

Minor change to Ion Torrent day 1
csc-training · Aug 14, 2023 · 25f19c7 · 25f19c7
2 parents cbe02f4 + b0913c0
commit 25f19c7
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diff --git a/docs/IonTorrent/Exercises_day1.html b/docs/IonTorrent/Exercises_day1.html
@@ -7,7 +7,7 @@
 
 
 
-    <title>Exercises_day1.knit</title>
+    <title>Exercises_IonTorrent_day1.knit</title>
 
         <script>// Pandoc 2.9 adds attributes on both header and div. We remove the former (to
 // be compatible with the behavior of Pandoc < 2.8).
@@ -891,13 +891,12 @@ <h1><strong>Day 1: Data pre-processing</strong></h1>
 <p>Note that after this point in real life you can delete the individual
 FASTQ files, because you can always open the tar package using the tool
 <code>Utilities / Extract .tar.gz file</code>.</p>
-<p><strong>Step 3. Check the quality of reads with FastQC</strong></p>
+<p><strong>Step 3. Check the quality of reads with MultiQC</strong></p>
 <p>Select the file <code>zippedFastq.tar</code> and the tool
 <code>Quality control / Read quality with MultiQC for many FASTQ files</code>,
 and click <em>Run</em>. Select the result file and click <em>Open in new
 tab</em>.</p>
-<pre><code>How long are the reads (in the General Statistics section, click 
-Configure columns, select Length and unselect M sequences)?
+<pre><code>How long are the reads?
 
 Based on the plot Sequence Counts, do all the samples have the 
 same number of reads? Are most of the reads unique?

diff --git a/eLena_md/IonTorrent/Exercises_IonTorrent_day1.Rmd b/eLena_md/IonTorrent/Exercises_IonTorrent_day1.Rmd
@@ -52,13 +52,12 @@ Select all the FASTQ files:
 
 Note that after this point in real life you can delete the individual FASTQ files, because you can always open the tar package using the tool `Utilities / Extract .tar.gz file`.
 
-**Step 3. Check the quality of reads with FastQC**
+**Step 3. Check the quality of reads with MultiQC**
 
 Select the file `zippedFastq.tar` and the tool `Quality control / Read quality with MultiQC for many FASTQ files`, and click *Run*. Select the result file and click *Open in new tab*.
 
 ```
-How long are the reads (in the General Statistics section, click 
-Configure columns, select Length and unselect M sequences)?
+How long are the reads?
 
 Based on the plot Sequence Counts, do all the samples have the 
 same number of reads? Are most of the reads unique?