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Download
This is a relatively short section, as it only covers downloading the required components to run the workflow
One the command line, execute git clone https://github.com/JoshLoecker/FastqToGeneCounts.git to download this workflow into the current directory under a FastqToGeneCounts directory
If you would like to download to a specific directory, simply add this name to the end of the command:
git clone https://github.com/JoshLoecker/FastqToGeneCounts a_new_directory
On almost all high-performance clusters, conda is already installed. If it is not installed on your computer, follow the guide to install it for your system.
You can test if Conda is installed by executing conda --version.
CookieCutter is a python package that sets up configuration files from project templates. Test if it is installed by executing cookiecutter --version.
If CookieCutter is not installed, this is not a problem. It will be installed durin the Setup portion of this guide
Created by Josh Loecker and Brandt Bessell