Adds dependencies = TRUE to install.packages().
Major fix for the packages.R file.

This fixes the never ending loop I had accidentally created.
Adds update.packages()

Before running install.packages, update existing packages so you don't
get into problems.
Adds several packages, improves formatting.

- Improves formatting - Lines everything up, to make this monster
  easier to read.
- Adds packages such as ascii, tables, mapdata, mapproj, etc.
Minor improvements.

- Minor formatting improvements.
- Adds an explicit section for functions in R.