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- markdown

- saved in git

- transformed by pandoc (and some filters)

- for text, trees, list/table data, local and global URLs/references

- using dead-simple tags

But above all: don't use anything to organize your thoughts

You will not figure things out better using outlines or mind-maps or blog entries or ontologies or equations or chats.

Think your thoughts until they are compressed from mud to diamonds.

Then their structure and media will be clear, and the unending task of conveying them to others can begin. You'll find organization is driven not by author but by audience.



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