more course details

Author: markdunning

index.html

@@ -47,6 +47,32 @@ <h3>
           <li>Shamith Samarajiwa</li>
         </p>
 
+        <h3>
+        <a id="prerequisites" class="anchor" href="#prerequisites" aria-hidden="true"><span class="octicon octicon-link"></span></a>Prerequisites.</h3>
+        <p>
+          <li>A knowledge of current sequencing technologies, data formats (e.g. fastq and bam) and alignment </li>
+          <li>A very basic knowledge of UNIX would be an advantage, but nothing will be assumed and extremely little will be required </li>
+          <li>Attendees should be comfortable with using the R statistical language to read and manipulate data, and produce simple graphs</li>
+        </p>
+        
+        <h3>
+        <a id="aims" class="anchor" href="#aims" aria-hidden="true"><span class="octicon octicon-link"></span></a>Aims.</h3>
+        <p>
+          <li>To provide an understanding of how aligned sequencing reads, genome sequences and genomic regions are represented in R. </li>
+          <li>To encourage confidence in reading sequencing reads into R, performing quality assessment and executing standard pipelines for RNA-Seq and ChIP-Seq analysis </li>
+        </p>
+        
+
+        <h3>
+        <a id="objectives" class="anchor" href="#objectives" aria-hidden="true"><span class="octicon octicon-link"></span></a>Objectives.</h3>
+        <p>
+        <li>Know what tools are available in Bioconductor for HTS analysis and understand the basic object-types that are utilised. </li>
+        <li>Given a set of gene identifiers, find out whereabouts in the genome they are located, and vice-versa (i.e. go from genomic coordinates to genes). </li>
+        <li>Produce a list of differentially expressed genes from an RNA-Seq experiment. </li>
+        <li>Import a set of ChIP-Seq peaks and investigate their biological context.</li>
+        </p>
+
+
         <h3>
         <a id="software" class="anchor" href="#software" aria-hidden="true"><span class="octicon octicon-link"></span></a>How to Run the course.</h3>
         We recommend using <a href="www.rstudio.com">RStudio</a> for the practicals