update to gh-pages

Merge branch 'gh-pages'

Conflicts:
	Lectures/Lect2-StringsAndRanges.pdf
	Practicals/4.Annotation-and-Visualisation.pdf
	Practicals/ChIP-Seq_Practical_3.pdf
	README.md

Author: markdunning

Dockerfile

@@ -0,0 +1,22 @@
+
+FROM bioconductor/release_base
+MAINTAINER Mark Dunning<mark.dunning@cruk.cam.ac.uk>
+
+
+RUN apt-get update && apt-get install -y git
+###Get repository of the course. Install data and R packages
+RUN git clone https://github.com/bioinformatics-core-shared-training/ngs-in-bioc.git /home/rstudio/
+WORKDIR /home/rstudio
+RUN wget https://www.dropbox.com/s/ve6o68hkbthe3lo/exampleData.zip
+RUN mkdir Practicals/nki
+RUN unzip exampleData.zip
+RUN R -f installBioCPkgs.R
+RUN rm -r images javascripts stylesheets params.json index.html exampleData.zip
+RUN mkdir Practicals/exampleData
+RUN mv exampleData/* Practicals/exampleData
+RUN rm -r exampleData/
+RUN wget https://www.dropbox.com/s/82p2dcwwo3qnf21/nki.zip -P Practicals/nki
+WORKDIR Practicals/nki
+RUN unzip nki.zip
+RUN rm nki.zip
+WORKDIR /home/rstudio