Documentation and Workshop Materials

Getting Started
- I want to run Linux Operating System
  - Where to get bioslax
  - For faster speed downloading, use the Local Version of BioSlax 7
  - How to boot up bioslax: See YouTube movie
- I want to run Windows Operating System and I have >1Gbyte RAM on my PC
  - Where to get VMPlayer (Local site)
  - Where to get BioSlax VMK version 7
  - Instructions on Bioslax VMPlayer wiki
- I want to run Windows Operating System and I have less than 1Gbyte RAM on my PC
  - Start up Windows
  - Installation of R/Bioconductor for Windows Users < 1GB RAM
  - First, to install R, download this file http://mirror.kapook.com/cran/bin/windows/base/R-2.7.0-win32.exe
  - Double Click on R-2.7.0-win32.exe to install
  - Once you have installed R onto your windows system. Start it up.
  - Secondly, to install Bioconductor
  - Create this file named biocInstall.R in the same folder and insert the following commands; save.
```
source('http://www.bioconductor.org/biocLite.R')
cat('Installing Basic Bioconductor Packages\n')
biocLite()
cat('Installing CNV/SNP analysis packages\n')
biocLite(c('snapCGH','beadarray','beadarraySNP'))
cat('Installing graphics packages\n')
biocLite('gplots')
```
  - Alternatively, you can download this file for your convenience biocInstall.R , and save in the same folder as the R package and name it biocInstall.R
  - Run the following command within R:
```
source('biocInstall.R')
```
  - This will run the biocInstall.R program and it will automagically go to www.bioconductor.org and download the necessary modules for bioconductor package and install it into your PC.
  - Once done, you have fully installed both R and Bioconductor within your Windows operating system.
Course Materials
- Download Course Programme PDF
- Download R Newsletter 2006 Large 4Mb! PDF
- Download Gentleman et al, 2005
- Download Worksheets
  - Session 1 Worksheets (PDF Format)| Session 1 Worksheets (Word Format)
  - Session 2 Worksheets (PDF Format)| Session 2 Worksheets (Word Format)
  - Session 3 Worksheets (PDF Format)| Session 3 Worksheets (Word Format)
  - Session 4 Worksheets (PDF Format)| Session 4 Worksheets (Word Format)
- Download powerpoint presentation slides
  - Session 1 presentation slides
  - Session 2 presentation slides
- Download Data Files
  - Session 2 data
  - Session 3 data (tar or zip format)
    - Alternatively you might want to view the original data available at NCBI.
      - GE349 Dataset at NCBI
      - GE350 Dataset at NCBI
- Course Miniproject