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I have been using Mendeley for my research paper library for some time and I absolutely love the way it takes care fo organizing my library. Is there such a Web/Desktop app to organize my ebook library. I would like to put all my PDFs (and other formats) in a giant folder and the app should take care of organizing them by author, publisher, isbn, tags etc

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Why not use Mendeley for the purpose? (I have my e-books in Mendeley) The ISBN resolver isn't working but maybe in some time (see: feedback.mendeley.com/forums/4941-mendeley-feedback/suggestions/…) –  Piotr Migdal Dec 7 '10 at 11:09
    
@Piotr thats the whole point. It is very promising but right now its just not working for me –  Midhat Dec 7 '10 at 13:27

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Although NOT a web app, I use Calibre (http://calibre-ebook.com/) for my nook. It can manage eBooks and PDF docs. Additionally, it can download and convert RSS feeds. I use it like iTunes. It's open source and there is a version that runs on Windows, Apple and Linux.

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It's kind of a web app... you can run a content server from it and access it from your lan or the internet :) –  Robert S Ciaccio Dec 7 '10 at 22:31

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