Feature/markdown user manual

[creisle]

Improvements

• Use python type annotations style in docstrings. Remove sphinx specific syntax
• convert user manual to use markdown instead of rst (use mkdocs instead of sphinx)
• re-organize docs to be grouped more logically

To test that this would not break the readthedocs docs build I enabled this branch there so you can see the result here: https://mavis.readthedocs.io/en/feature-markdown-user-manual/

[codecov[bot]]

Codecov Report

:exclamation: No coverage uploaded for pull request base (develop@b05d1d2). Click here to learn what that means. The diff coverage is n/a.

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##             develop     #223   +/-   ##
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  Coverage           ?   91.25%           
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  Files              ?       52           
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  Hits               ?     8328           
  Misses             ?      798           
  Partials           ?        0           

Flag	Coverage Δ
#unittests	91.25% <0.00%> (?)

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