It is much easier than you think, with a couple of specialized tools (capo, ruler gauge of some sort in mm or 64ths of an inch, that start on the edge, feeler gauges, screwdriver, allen wrenches).
When I started figuring this out I tried a few different techniques I saw and settled on what worked for me. One word of advice, measure everything BEFORE you start, so you at least know where you started. I wrote the process down in a notebook on what ways to do each adjustment from truss rod, string height, intonation, pickup height - in that order (add in nut height at the beginning if you have the right files), but check it either way.
Some folks use business cards or picks or just plain feel/eyeball for the adjustments, my engineer side makes me get everything exact, but there is no need for that. Over time you learn what feels good and how to get there.
I did my first bass a few times in a row (undoing what I did a bit and redoing) just for practice.