Consolidate local node and federation setup into single set of instructions

[alyssadai]

Description

The docs need to be updated to reflect the recommended use of our new single Compose file and deployment recipe.

• [x] https://github.com/neurobagel/documentation/issues/184
• [x] https://github.com/neurobagel/documentation/issues/181
• [x] https://github.com/neurobagel/documentation/issues/142

Other content we want:

• How to spin up docker compose
  • clone repo first, then make local changes
  • set .env variables
  • key .tsv for the important .env variables (?)
  • list of the profiles (replacing the different deployment sections)
  • incl when to use each
  • make sure to docker compose pull the latest images!!
• keep around the "how to do this with curl" stuff in info boxes / box
• how to update versions of tools (w/o having to reupload all the data in the graph)
• how to clear the graph

In depth/more info section:

• change user permissions
• all the .env variables

Relevant documentation pages

• https://neurobagel.org/infrastructure/
• https://neurobagel.org/federate/

Additional details

No response