Initial commit of the .gitignore file. I think it is fair to say that
most people using this template will be using git for their VC.
Changes the language in the README file to reflect my decision to use
branches, not folders to hold the two parallel versions of
TemplateR.

I think this is a good choice because it will make it easier for me to
keep the two versions of the template structure in sync as I change /
improve things over time.
Small changes to the README file. Nothing earth shattering.
Describes the differences between analysis.R and scratch.R.

I wanted to make it clear in the README why both files were found in
the Template folder.