[DRAFT PR] v0.5.0 docs update

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Type

• [x] Rewrite already written documentation
• [x] Add/remove new pages

Questions

• [x] Did you preview your changes beforehand?
• [x] Did you read the Atlas Contribution Guidelines?

Describe your pull request

This merge contains multiple changes (updated structure, fixex paths and nav, faq, msdl, etc.) of the v0.5 documentation.

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