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This is excellent. I am writing my phd dissertation right now, and wrote my own variant of markdown to generate it! I wholeheartedly agree! You guys have the right design spirit and vision. Take it forward, and grow a little bolder! Make versions that uniquely take advantage of the web for READING, not just for WRITING!

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Yep, we are exactly on the same wavelength! We have big plans :)

What do you compile your markdown flavour to? Is it public?

At the moment it is mostly GitHub-flavored markdown. We did consider Pandoc-flavor, but for the time being we are sticking to GitHub's. We might change it slightly. So far, 80% of our users have authored in LaTeX so we have been busy supporting that

And does your university accept the thesis in the format you output to? The requirements here are quite specific, even LaTeX is nontrivial to set up to fulfill them.

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