For things that allow this like Emacs and Bash, I separate things into (for example) a config and a config-private repo. The config repo I put on github, and t

For things that allow this like Emacs and Bash, I separate things into (for example) a config and a config-private repo. The config repo I put on github, and the private repo on my own server. Then, with the public config file (~/.emacs.d/init.el and ~/.bashrc) I load a file based on the hostname that contains location-specific and private information. This is useful because I can use the same framework at work and on personal machines. I don't have to mix the two.