- Foam. On top of VS Code. Backlinks, graph, Markdown.
- Org roam. On top of Emacs and Org mode. Backlinks, graph, Markdown as well as Org support.
- Trillium. Markdown.
- Zelltr. Markdown.
- Neuron Zettelkasten (future-proof open-source CLI app for managing your plain-text notes in Zettelkasten style, as well as for publishing them on the web.)
- tamlok/vnote: A note-taking application that knows programmers and Markdown better.
- Obsidian. Markdown, Org mode
- Roam. Web. Closed source. Paid. Backlinks. Markdown
- DevonThink. Proprietary. macOS + iOS only.
- Notion. Markdown
See also Public knowledge bases.