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Love Logseq for a lot of reasons, but their PDF annotator is really a gamechanger. I can open a PDF, mark it up, copy the highlighted reference to my notes, and then when I review my notes just by clicking the copied reference I can jump to that section of the PDF. Awesome.
Yeah seconded that it’s not FOSS but still a great app. Logseq is a good FOSS alternative for a knowledge base, and I really like Zettlr for long form md writing and note taking too.