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SurveyJS
Open-Source JSON Form Builder to Create Dynamic Forms Right in Your App. With SurveyJS form UI libraries, you can build and style forms in a fully-integrated drag & drop form builder, render them in your JS app, and store form submission data in any backend, inc. PHP, ASP.NET Core, and Node.js.
I use Zotero as my reference(papers, blogs, tweets, videos, etc..) manager. For research papers especially, I do take quick notes and highlights in Zotero. I import those notes to Obsidian(a couple of plugins do this, but I wrote a plugin called obsidian-zotero-annotations to do this) to make atomic notes. With the help of the Reference map plugin, I find related papers and literature, then import them to Zotero, and the cycle continues. (Zotero-Obsidian-Zotero).
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