Here is a short intro on short read assembly using the SPAdes assembler. Some notes on tool installation:To install SPAdes or other tools into your PATH you may wish to use a package manager called Miniconda. For this go to the website here and download the 64-bit Linux distribution: https://conda.io/miniconda.html # then, once you have located this file on your computer, type bash Miniconda2-latest-Linux-x86_64.sh # and follow the installation instructions. When asked to append the PATH info say "yes". # After this you will need to close your terminal and re-open it before beginning again. Then you should be able to install tools using conda. For the module today we will need to install two tools: the sra-toolkit and an assembler called spades. conda install -c bioconda sra-tools conda install -c bioconda spades