For my PhD I have to say I just kind of winged it. However, nowadays I use notion.so for personal organization. Basically I define schemas for types of data I

For my PhD I have to say I just kind of winged it. However, nowadays I use notion.so for personal organization. Basically I define schemas for types of data I want to handle (tasks (which you can view as kaban boards), papers I’ve read/want to read, ideas, meeting notes, documents) and then define them as notion databases. Extensively use tags to make things searchable, cross-reference, custom views (via linked databases).