Tomboy notes is is a very good desktop note-taking application for Unix and Linux. It makes linking very easy and (at the time of writing) there are a few useful plugins that would be useful for reminders with Tomboy, exporting the linked notes to a graph, or posting your notes to a WordPress or Blogger blog.

Just a quick little thing that you might be interested in if you are a developer that runs Linux.

UPDATE: There is also a plugin that exports Tomboy notes to Vym (See the CodingExperiments post on Vym).

If you’re of the type that writes out math in your notes, you might be interested in the LaTex math plugin for Tomboy.