Recommended and mentioned products
Logseq is a local-first, non-linear, outliner notebook for organizing and sharing your personal knowledge base.
I’d check out logseq . Closer to roam than obsidian, but GPL, operates on plaintext files, and supports Org-mode style formatting as well as markdown. It’s getting to be fairly fully featured by now, and the development team moves fast. It’s a joy to use. : https://logseq.com/.
A second brain, for you, forever. Obsidian is a powerful knowledge base that works on top of a local folder of plain text Markdown files.
Capture and access information from anywhere
I really love obsidian. Sure I t has a couple of wrinkles, the mobile app is new still and has a couple more wrinkles, but it scratches so many itches I have around note taking. Currently using it alongside https://get.mem.ai/ and love the pairing for knowledge base and real time notes. I’m working from n combining the two to come up with my ideal set up.
a non-linear personal web notebook
The Open Source solution which serves me well for years has been TiddyWiki (1). Supports Tags and various modes of output. Each page one file or all in one, very open so recursive changes can be applied on the shell in plain files. (1) https://tiddlywiki.com/.
Notabase is a powerful and easy-to-use note-taking app for networked thinking. Connect your ideas together and write more effortlessly.
Might be worth checking out Notabase . The UI is designed to be really clean and easy-to-use. : https://notabase.io.
Write Markdown documents with a comprehensive GUI and many workflow/time management tools.
I've been using MS Word with a heavy reliance on Track Changes for years, and I'm converting my technical writing department to use Markdown as fast as I can. I have moved them to the WYSIWYG-on-Markdown editor Zettlr, and my non-technical writers have praised it for being "almost-not-techie at all". I can't stand one more MS magic trick to auto-formatting on copy-paste (while mangling half of the...
Personal knowledge management and sharing on VSCode & GitHub
I like to use Obsidian on iOS and then Foam on my computer. They happen to have a lot of the same custom Markdown syntax, and I prefer using VS Code on my computer :) https://foambubble.github.io/foam/.
Dynalist is a web app that lets you break down and organize your thoughts in the format of lists.
A cat(1) clone with wings.
And some more snippets since I'm copying and pasting already. (I'm using "bat" to view files. Get it from https://github.com/sharkdp/bat )
40 │ ;; Taken from https://karl-voit.at/2017/02/11/my-system-is-foobar/.
Manage your Notes from any Git Repo.
If you wish to also edit those files on mobile, GitJournal  could be useful for you. I've even added basic org-mode support.  https://gitjournal.io.
Zim is a graphical text editor used to maintain a collection of wiki pages. Each page can contain links to other pages, simple formatting and images.
Just to chime in here, long time "http://zim-wiki.org" guy here. I'm still basically sticking with Zim for most of what I do, but that's probably mostly the equivalent of "personal muscle memory," for structured things. But I am moving to Obsidian for anything "non-heirarchical" or "unstructured;" which for me is my "bookmarking" system as well as my personal Zettelkasten/brain exploring gardeny thing. The...
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Oh, there are better ways, there's just no paying customers. You can express knowledge using a Semantic Web Stack and query it with SPARQL or Turtle. Wikidata is an example of this. But I'm not aware of anyone selling a product that completely encompasses building and using a large semantic knowledge base for consumers. Some industries have Semantic Web-based solutions (i'm not aware of commercial...