Add instruction about installing jekyll and reorganize structure a bit.
Edit and add links to changelog for 0.03.1

Rename changelog for 0.03.1 to correct name.
A lot of editing to the index, also containing the new structure of the docs.
Edits and grammar fixes.
Edits and grammar fixes.
New organization of the documentation
Fix links to documents following the new organization
Edits to inference/factor graph doc. Fix title of it in index.md
Some editing of 'general' documents
Assign a TODO to All
Editing of system overview
Editing of the installation guide.
Fix section title
Editing of the Writing an application document. Add an anchor to inference.md so we can use it inside the former.
Editing of the writing extractors document
Editing of the writing inference rules document
Fix so I can deploy.
whitespace.
Add todo item about the multinomial
Editing of the calibration document.