Update basecalling.rst

metagenomics · Nov 13, 2017 · 2e17c8b · 2e17c8b
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commit 2e17c8b
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diff --git a/docs/basecalling.rst b/docs/basecalling.rst
@@ -195,6 +195,19 @@ To make life easier for future computations, we will merge the fastq files into
   cat ~/1D_basecall/workspace/pass/*.fastq > ~/1D_basecall.fastq
   cat ~/1D_2_basecall/1dsq_analysis/workspace/pass/*.fastq > ~/1D_basecall.fastq
 
+Quality statistics with FASTQC
+------------------------------
+
+Evaluate with fastqc::
+  
+  mkdir ~/www/1D_fastqc
+  mkdir ~/www/1D2_fastqc
+  fastqc -o www/fastqc_1D/ <1d.fastq>
+  fastqc -o www/fastqc_1D2/ <1d2.fastq>
+  
+After that, you can load the reports in your web browser::
+
+  http://YOUR_OPENSTACK_INSTANCE_IP/quast/summary/report.html