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cdh  # move to your home directory
nano .bashrc  # open your .bashrc file for editing
# scroll down to section 1 where modules are being loaded and add the following command making sure to include the leading spaces to match the formatting.
  module load bowtie/2.2.6
ctl-o # exit nano
ctl-x  # exit nano
source .bashrc  # this is the equivalent of logging out of lonestar and logging back in

breseq will should now run using the breseq command  command. There are 2 key ways to check if a program is working/installed how you expect it to be: the which command, and the command itself. The which command searches through your PATH variable looking for the name of the command or file that comes after it. In the case of 'which breseq' you should see /work/<NUMBER>/<USER>/lonestar/src/BioITeam/breseq/bin/breseq . breseq by itself meanwhile will show you what the command expectations are. Not all programs are configured to tell you what it expects just from typing the name of it. Some require the name of the command followed by one of the following: -h or --help or ? while others require preceding the command name with "man" (short for manual). If all that fails google is your friend for all programs not named "R" ... google is still your best bet, but it won't be your friend. In the specific case of R, adding the word stat somewhere to the search will greatly help things.

Data

The data files for all the class tutorials are located in following location:

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