PIM Citation Tool Comparison Chart
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SoftwareGood For?CostAccessCollaborationEase of UseWord Processing Software CompatibilityAutomatically Syncs with?Create Your Own Import Filters?Import FromFile StorageNotes & TagsCitation StylesAdditional FeaturesLibraries Help
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EndNoteResearchers with collaborative projects and preparing manuscripts.Desktop: about $100 for U of M students, staff, & facultyMacintosh, Windows, Web Browser, iPad appShare libraries and groups of references with other EndNote usersmore advancedMicrosoft Word [Cite While You Write] for Windows: 2007, 2010, 2013 and Apache OpenOffice [Cite While You Write] for Windows: 3.x
see http://endnote.com/product-details/compatibility for more
Can create an EndNote online account and sync with desktop versionYesonline databases, other citation softwareUnlimited reference and attachment storagecan annotate and highlight PDFs and search PDF text and annotationsover 5000 styles availableFind Full text and PDF auto import. Create subheading and category bibliographies, Journal abbreviation recognition & standardization. Automatic reference updating. EndNote Help
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EndNote BasicUsers who are new to research and writing.Free to U of M students, staff, & facultyWeb-based; onlineshare citations & groupsModerately easyWord for Windows, Macintosh
Can create an EndNote online account and sync with desktop versionNoWeb of Science, Ovid, EBSCOhost databases, RefWorks, EndNote Desktop, and more.Reference storage is limited to 50,000 citations and 2 GB attachment storagemajor styles + moreEndNote Basic Help
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MendeleyGood choice for papers for classes or if you already have a lot of pdfsFree; very large PDF libraries may require purchased storage spaceDesktop software (Mac/PC); offline & online; browser integrationAllows the sharing of citations and papers with a single clickModerately easyCompatible with MS Word, Open Office, and BibTexZotero
Dropbox
Google Drive
Nolibrary databases
websites
other citation software
2GB for free (100MB storage for 1 3-person group)
More space or larger groups available for a fee.
Can annotate pdfs1180 styles (community generated)Mendeley Help
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RefWorksGood choice for papers for classes, group projects, and manuscriptsFree to U of M students and alumni. Free to staff & faculty while affiliated; available from RefWorks at cost afterwards.Web-based; offline & online; plug-ins for Word (Mac/PC)Create group accounts, share folders with other campus users, share read-only citations with anyone via public url, collaborate with anyone using RefShare.Moderately easyMSWord (Write-n-Cite)
Can format RTF, HTML, & OpenOffice .odt documents with manual citation insertion
Works with LaTeX through BibTeX
Nolibrary databases
library catalog
websites
RSS feeds
other citation software
Limited to 5GB per account for file attachments
Can organize citations in folders
Can add notes & tags to citation~1600 styles available
Edit, create, & request additional styles
RefWorks Help
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ZoteroGood choice for papers for classes. Best choice for web-based sources (non-journal)FreeDesktop software (Mac/PC); offline & online; browser integrationCreate synced group librariesEasyMSWord, OpenOffice, & Google DocsNolibrary databases
library catalog
websites
RSS feeds
other citation software
300 MB free storage, Very easy to attach files. Usually stores web pages, screen shots, PDFs and other objects automatically on saving citation 
Text can be searchable
Can attach notes & tags to citations15 major styles (e.g., Chicago) as well as >1000 other user-developed stylesZotero Help
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Paperpilededicated Google users$2.99 month/14 day free trialweb; online; browser integrationcreate private links to share citations and papersEasyGoogle DocsGoogle DriveNoScholar
PubMed
ArXiv
websites
BibTeX or RIS
Mendeley
Zotero
As much as Drive allowstags on citations; no annotation of papers17 primary styles; copy to clipboard in "thousands of style"
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BibTeXusers who know already that this is what they needfreedesktop, web, online, offlinevariesNot easyLaTeX editorsn/an/avariesn/an/avariesBibTeX Help
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Citation Managers