Update parameter estimation notebook

[lymichelle21]

• Add table of contents
• Fix formatting for consistency

[github-actions]

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[kjjarvis]

These changes look great. I like the consistency a lot! Just a couple minor edits (all based on the previous work that was done, not the new stuff). And one question regarding the metadata in the notebook. Great work!

[teubert]

A few cosmetic suggestions (including some for lines you didn't touch). But overall it looks great! Good work!

[kjjarvis]

Great additions and edits! Thanks for working so hard on this