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When comparing CherryTree vs Zettlr, the Slant community recommends CherryTree for most people. In the question“What is the best cross-platform note-taking app?” CherryTree is ranked 29th while Zettlr is ranked 49th. The most important reason people chose CherryTree is:
https://giuspen.com/cherrytreemanual/#_keyboard_shortcuts
Specs
Question Ranking
Pros
Pro Keyboard shortcuts for productivity
Pro Supports internal and external links, tables and images
Pro CodeBox for multiple languages
Pro Export to PDF / HTML
Pro Can be password-protected
Pro Focuses on writers
While many Markdown editors don't offer specific support for a certain type of workflow, or offer features for scientific workflows only, Zettlr offers features that help the writing process of journalists or researchers in the arts and humanities. It's a lot more text-focused than most editors.
Pro Citation support
While it supports a diverse range of syntax (chart, easy image insert, etc.) found in other editors, the great citation support made it possible to write real articles. Citation from Zotero and Mendeley can be inserted easily which is a huge plus.
Pro Almost perfect
This is the best option, still not perfect, there are some bugs like creating / editing tables and resizing images, but the PROS destroy the CONS, easy quotes, WYSIWYM , attachments tab (supports attaching and opening links to any file), table of contents, TAGs, easy hyperlink between files (same as citations), export to many formats (like Word, HTML5, PDF)...
Pro Renders math in-place through KaTex
Cons
Con No Android version
Con no cloud sync
Con Tables are not customizable
Con has default first column : clickme
Con Single user only
Con Obtrusive, like someone WITH CAPS LOCK ON
Too loud, too much going on, and definitely an in-your-face sort of feeling.
Con Large, slow, can't open just a single .md file
