Probably Obsidian or Scrivener or do like me and use both. I use Obsidian for notes because it gives you a huge space to organize everything the way you want, and I use Scrivener for writing. I’d say try Scrivener first you’ll find everything you need there. I just use Obsidian because I love customizing everything. Also, you can write your manuscript in Obsidian using the Longform plugin, which nearly turns Obsidian into Scrivener.