I’m currently working in yEd (free, brilliant once you figure it out and it’s easy: Ctrl-W, F2 to edit label, repeat) to sort out some ideas and it centers around nodes and edges organization, either directed or undirected and you can swap around.
Yet if you look at the bottom left, you can a handy hierarchical view for a notion called “Groups” (Folders) which is less of a priority (you can’t export it which is annoying). where can group nodes or groups together arbitrarily.
On the upper left is the concept of “Neighborhoods” – the nearest neighbors – and how each are related is up to you.
So with this, there are multiple ways to navigate. A folder structure is a useful form of navigation. A hyperlink (node edge) is a handy form of navigation and a map is a handy form of navigation and then there’s the text search or attribute searches.
#hashtag searching seems to be used more for computers than people, becoming redundant as search markers for people but useful as an active BOLDFACE as it were more than anything.
Text search was and is still king in the end.
I was still using diskettes for sorting things.
When I got my first hard drive (20MB) I was excited and started organizing everything in folders.
Then being miserable with my choices and changing them around and losing things, hidden in folders.
I was fine with diskette organization. I was fine with free text search. But folders to this day never clicked with me.
I’ll sort by date, sort by name, sort by extension and I’ve made folders reflect that which can work. I begrudgingly use VIDEOS, MUSIC, DOCUMENTS, DOWNLOADS directories but they never keep the right stuff in them.
So, in 30+ years of computers – and many years working with actual manila folders too – I never mastered even the basics of folder organization. I keep trying though.