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scrible - scrible lets you highlight and annotate web pages and easily save, share and collaborate on your...
Zotero - Zotero is a free, easy-to-use tool to help you collect, organize, cite, and share research.
Genius.it Web Annotator - Distinct from Genius's original rap and music lyric annotations, Genius.
Qiqqa - Qiqqa is a free research and reference management software. It can be used in many organizational projects from the academic to the personal to the business endeavor. Read more about Qiqqa.
Hypothes.is - Annotate with anyone, anywhere
JabRef - Graphical Java application for managing bibtex (. bib) databases.JabRef · JabRef Help · JabRef | Blog · OpenOffice/LibreOffice .