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Just to put my 2 cents in. I have both good reader and iAnnotate. Good reader wins at file sharing hands down. You can access many online storage systems with it like dropbox. However there are no note taking tools in it. It just reads files. iAnnotate is great also. Harder to get files in and out, you have to use a standalone server program on your mac. But it is great for text annotation and highlighting. Combine this with evernote and the iPad is a great mobile research tool.
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