Information for: EndNote X9 | EndNote 20 | EndNote Web/Online Classic | EndNote Click
Important notes before you begin
Save your EndNote library to your computer locally, NOT on cloud (i.e. OneDrive, Dropbox, Google Drive) or networks (i.e. Eastern Health shared drives or personal drives (e.g. L: or M: drives))
Your .Data & EndNote Library files for EACH LIBRARY must be in the SAME folder.
Regularly back up your EndNote Library by using a Compressed EndNote Library (.enlx). Syncing with EndNote Online does not mean your library is backed up, syncing only allows you to access your library from different devices.
EndNote X9
When starting EndNote X9 for the first time, you will be asked to open an existing library or create a new library.
When creating a new library, you will be asked to choose a folder to save your library. Remember to save your .Data and EndNote Library files together in the SAME location. Refer to the Important notes before you begin section of this guide for more details.
You can import and export references into and out of your EndNote library. Accepted file formats for importing references are RIS (recommended), PDF, EndNote files & BibTex.
EndNote can export references in RIS (recommended), BibTex, XML or Excel formats.
There are a few ways to import references:
Bulk import from a database
First, download your search results from a library database. For more information, see the Exporting Search Results section of our Literature Searching guide.
Go to File > Import > File... and a pop-up window will appear.
Uploading PDFs
Drag and drop your PDF(s) onto the toolbar at the top of your EndNote library to add them.
Or go to File > Import > Folder... a pop-up window will appear. Choose the folder containing your PDFs.
Manual/single entry
Click on the New Reference icon in the toolbar to add a new reference or record manually. You will have to input details such as article title, author(s), year of publication, journal name, volume, issue etc.
Import from EndNote Click
Refer to the EndNote Click section to this guide for more information.
Your references can be exported out of EndNote for many reasons, e.g. moving references to another reference manager such as Mendeley or Zotero.
Select the references you want to export and go to File > Export. A pop-up window will appear.
Navigate to the references you want to deduplicate and select all of them by pressing CTRL + A on your keyboard. Go to References > Find Duplicates.
A pop-up window will appear, comparing the differences between the duplicate references.
If you have too many records and going through them one-by-one is not feasible, click Cancel. The pop-up window will disappear and EndNote will highlight the duplicate references in your library. At this point, you can decide what you want to do with them.
Note: Most but not all duplicates will be detected by EndNote's Deduplication function. You will want to do a round of manual deduplication by sorting your references by author and/or title to check for any remaining duplicate records.
Edit references
Click on the record you want to edit and a panel will open on the right-hand side of your EndNote library.
Under the Reference tab on the right side panel, click on any field to add or edit the field. When you are done with editing, remember to press CTRL + S on your keyboard or go to File > Save to save your changes. If you click away from the edited record without saving, EndNote will prompt you to save your changes before doing anything else.
Delete references
There are two ways to delete references: pressing the "delete" button on your keyboard or right-clicking the reference and selecting "Move References to Trash".
There are a few ways to select multiple references at once:
Deleting references in "All References" (located on the left sidebar)
The selected reference(s) will be moved to the Trash folder when you press "delete" on your keyboard OR right-click the reference and move it to trash.
Deleting references which are filed in groups
When you press the "delete" button on your keyboard, the selected reference(s) will be moved to "Unfiled" (located on the left sidebar).
Right-clicking the reference(s) and clicking "Move References to Trash" sends them to the Trash folder.
Creating groups
Right-click on My Groups and a pop-up menu will appear.
Rename or delete group or group set
To rename or delete a group: Right-click on the group and choose Rename Group or Delete Group.
To rename or delete a group set: Right-click on the group and choose Rename Group Set or Delete Group Set.
Moving references to groups
There are a few ways to move references to groups. After creating the group, you can:
Before you can start sharing your EndNote group, your EndNote library must be synced with an EndNote Online account.
If the person you are sharing your group/EndNote Library with has:
Sharing groups
To share a group, right-click on the group that you want to share and enter the person's email address under the Invite More People field. You can change the person's access permission to Read & Write or Read Only. Click Invite to send the invitation to the person you are sharing the EndNote library with. Their email address and permission level will appear in the Sharing With box.
Sharing EndNote Library
This step allows you to share your entire EndNote library with other people.
Go to File > Share and enter the person's email address under the Invite More People field. You can change the person's access permission to Read & Write or Read Only. Click Invite to send the invitation to the person you are sharing the EndNote library with. Their email address and permission level will appear in the Sharing With box.
Uploading a PDF to a record
If you have a reference/record in your EndNote library without a PDF file, you can drag & drop the PDF file onto the record to upload the PDF into your EndNote library.
Records which have a PDF attachment have a paperclipicon next to the record in your EndNote library.
Finding the uploaded PDFs on your computer
Go to the computer location where you have saved your EndNote Library (e.g. Documents) and open your .Data folder. Then click on the PDF folder. You will see that the PDFs you have uploaded are stored in individual folders.
For more information on how to export your PDF files from EndNote, watch the video below:
Using the PDF Annotator
When you select a reference, a panel will appear on the right side of your EndNote library. Click on the PDF followed by the Open PDF icon highlighted in the screenshot below.
In the next screen, you will be able to annotate your PDFs using the toolbar provided.
From left to right: Rotate Counterclockwise, Rotate Clockwise, Sticky Note, Highlight Text, Underline, Strikeout, Search.
Remember to save any changes you have made by pressing CTRL + S on your keyboard or go to File > Save.
Close the PDF by clicking the Close PDFicon or the small X at the right-hand corner of your EndNote library.
EndNote's Cite While You Write allows you to insert references in your Word document (as both in-text citations and/or reference list) as you are writing up your paper.
To select an output style, go to Edit > Output Styles > Open Style Manager and tick the box next to the style. Click the small X at the top right-hand side of the screen to close the Style Manager. Then repeat the process of Edit > Output Styles > Open Style Manager and the style you have selected will be in the list. Now, you can choose to use or edit the style.
You can also change output styles for your library using the dropdown menu at the top of the toolbar.
When you insert a citation, the reference is linked to the corresponding record in your EndNote library. You can tell that a reference is linked if a grey highlight appears when you click on the reference. This means that any changes you make to the reference/record in EndNote will also be reflected in your paper in Microsoft Word.
To unlink the record, click Convert Citations and Bibliography > Convert to plain text.
Note: Once you unlink the record, it cannot be reversed and the only way to remedy it is to re-insert the citations from your EndNote library to your Word document.
Troubleshooting
If EndNote is installed AFTER Microsoft Word, the EndNote Cite While you Write add-in for Word will automatically installed. This means that when you open up Word, you will see an EndNote tab at the top of the toolbar/ribbon.
If EndNote is installed BEFORE Microsoft Word, you will need to trigger the installation of the EndNote Cite While you Write add-in for Word. To do so, follow these steps:
64-bit Machines: C:\Program Files (x86)\EndNote X9\
32-bit Machines: C:\Program Files\EndNote X9\
You can use your EndNote library on your computer without syncing. However, if you want to share your library or groups or access your EndNote library from multiple devices (e.g. personal & work computers), you will have to sync your EndNote library (version X9 and newer only) to an EndNote Online account.
EndNote X9 and EndNote 20 users should use the EndNote Online Classic while EndNote 21 users should use EndNote Web. You can create a free EndNote Online account here.
Backup your EndNote Library
Your EndNote library should be backed up regularly so you don't lose your library in the event that it gets corrupted. Syncing your EndNote library with an EndNote Online account does not back up your library.
Before you start syncing your EndNote library, EndNote will recommend that you back up your library. To do so, go to File > Compressed Library (.enlx). A pop-up window will appear.
Sync your EndNote library
To sync your EndNote library with an EndNote Online account, go to Edit > Preferences.
A pop up box will appear. Navigate to the Sync section and enter your EndNote Online email address and password.
In the box under Sync this EndNote Library, you can see the location of your EndNote library.
If the Sync Automatically box is ticked, EndNote will sync your library each time you open it. Click Apply once you are happy with the changes.
EndNote 20
When starting EndNote 20 for the first time, you will be asked to open an existing library or create a new library.
When creating a new library, you will be asked to choose a folder to save your library. Remember to save your .Data and EndNote Library files together in the SAME location. Refer to the Important notes before you begin section of this guide for more details.
You can import and export references into and out of your EndNote library. Accepted file formats for importing references are RIS (recommended), PDF, EndNote files & BibTex.
EndNote can export references in RIS (recommended), BibTex, XML or Excel formats.
There are a few ways to import references:
Bulk import from a database
Go to File > Import > File... and a pop-up window will appear.
Uploading PDFs
Drag and drop your PDF(s) onto the left sidebar of your EndNote library to add them.
Or go to File > Import > Folder... a pop-up window will appear. Choose the folder containing your PDFs.
Manual/single entry
Click on the Add a New Reference icon below the search button to add a new reference or record manually. You will have to input details such as article title, author(s), year of publication, journal name, volume, issue etc.
Import from EndNote Click
Refer to the EndNote Click section to this guide for more information.
Your references can be exported out of EndNote for many reasons, e.g. moving references to another reference manager such as Mendeley or Zotero.
Select the references you want to export and go to File > Export. A pop-up window will appear.
Navigate to the references you want to deduplicate and select all of them by pressing CTRL + A on your keyboard. Go to Library > Find Duplicates.
A pop-up window will appear, comparing the differences between the duplicate references.
If you have too many records and going through them one-by-one is not feasible, click Cancel. The pop-up window will disappear and EndNote will highlight the duplicate references in your library. At this point, you can decide what you want to do with them.
Note: Most but not all duplicates will be detected by EndNote's Deduplication function. You will want to do a round of manual deduplication by sorting your references by author and/or title to check for duplicate records.
Edit references
Click on the record you want to edit and a panel will open on the right-hand side of your EndNote library.
Under the Reference tab on the right side panel, click on any field to add or edit the field. When you are done with editing, remember to press CTRL + S on your keyboard or go to File > Save to save your changes. If you click away from the edited record without saving, EndNote will prompt you to save your changes before doing anything else.
Delete references
There are two ways to delete references: pressing the "delete" button on your keyboard or right-clicking the reference and selecting "Move References to Trash".
There are a few ways to select multiple references at once:
Deleting references in "All References" (located on the left sidebar)
The selected reference(s) will be moved to the Trash folder when you press "delete" on your keyboard OR right-click the reference and move it to trash.
Deleting references which are filed in groups
When you press the "delete" button on your keyboard, the selected reference(s) will be moved to "Unfiled" (located on the left sidebar).
Right-clicking the reference(s) and clicking "Move References to Trash" sends them to the Trash folder.
Creating groups
Right-click on My Groups and a pop-up menu will appear.
Rename or delete group or group set
To rename or delete a group: Right-click on the group and choose Rename Group or Delete Group.
To rename or delete a group set: Right-click on the group and choose Rename Group Set or Delete Group Set.
Moving references to groups
There are a few ways to move references to groups. After creating the group, you can:
Before you can start sharing your EndNote group, your EndNote library must be synced with an EndNote Online account.
If the person you are sharing your group/EndNote Library with has:
Sharing groups
To share a group, right-click on the group that you want to share and enter the person's email address under the Invite More People field. You can change the person's access permission to Read & Write or Read Only. Click Invite to send the invitation to the person you are sharing the EndNote library with. Their email address and permission level will appear in the Sharing With box.
Sharing EndNote Library
This step allows you to share your entire EndNote library with other people.
Go to File > Share and enter the person's email address under the Invite More People field. You can change the person's access permission to Read & Write or Read Only. Click Invite to send the invitation to the person you are sharing the EndNote library with. Their email address and permission level will appear in the Sharing With box.
Uploading a PDF to a record
If you have a reference/record in your EndNote library without a PDF file, you can drag & drop the PDF file onto the record to upload the PDF into your EndNote library.
Records which have a PDF attachment have a paperclipicon next to the record in your EndNote library.
Finding the uploaded PDFs on your computer
Go to the computer location where you have saved your EndNote Library (e.g. Documents) and open your .Data folder. Then click on the PDF folder. You will see that the PDFs you have uploaded are stored in individual folders.
For more information on how to export your PDF files from EndNote, watch the video below:
Using the PDF Annotator
When you select a reference, a panel will appear on the right side of your EndNote library. Click on the PDF followed by the Open PDF icon highlighted in the screenshot below.
In the next screen, you will be able to annotate your PDFs using the toolbar provided.
From left to right: Rotate Counterclockwise, Rotate Clockwise, Sticky Note, Highlight Text, Underline, Strikeout, Search.
Remember to save any changes you have made by pressing CTRL + S on your keyboard or go to File > Save.
Close the PDF by clicking the Close PDFicon or the small X at the right-hand corner of your EndNote library.
EndNote's Cite While You Write allows you to insert references in your Word document (as both in-text citations and/or reference list) as you are writing up your paper.
To select an output style, go to Edit > Output Styles > Open Style Manager and tick the box next to the style. Click the small X at the top right-hand side of the screen to close the Style Manager. Then repeat the process of Edit > Output Styles > Open Style Manager and the style you have selected will be in the list. Now, you can choose to use or edit the style.
You can also change output styles for your library using the dropdown menu at the top of the toolbar.
When you insert a citation, the reference is linked to the corresponding record in your EndNote library. You can tell that a reference is linked if a grey highlight appears when you click on the reference. This means that any changes you make to the reference/record in EndNote will also be reflected in your paper in Microsoft Word.
To unlink the record, click Convert Citations and Bibliography > Convert to plain text.
Note: Once you unlink the record, it cannot be reversed and the only way to remedy it is to re-insert the citations from your EndNote library to your Word document.
Troubleshooting
If EndNote is installed AFTER Microsoft Word, the EndNote Cite While you Write add-in for Word will automatically installed. This means that when you open up Word, you will see an EndNote tab at the top of the toolbar/ribbon.
If EndNote is installed BEFORE Microsoft Word, you will need to trigger the installation of the EndNote Cite While you Write add-in for Word. To do so, follow these steps:
64-bit Machines: C:\Program Files (x86)\EndNote X9\
32-bit Machines: C:\Program Files\EndNote X9\
You can use your EndNote library on your computer without syncing. However, if you want to share your library or groups or access your EndNote library from multiple devices (e.g. personal & work computers), you will have to sync your EndNote library (version X9 and newer only) to an EndNote Online account.
EndNote X9 and EndNote 20 users should use the EndNote Online Classic while EndNote 21 users should use EndNote Web. You can create a free EndNote Online account here.
Backup your EndNote Library
Your EndNote library should be backed up regularly so you don't lose your library in the event that it gets corrupted. Syncing your EndNote library with an EndNote Online account does not back up your library.
Before you start syncing your EndNote library, EndNote will recommend that you back up your library. To do so, go to File > Compressed Library (.enlx). A pop-up window will appear.
Sync your EndNote library
To sync your EndNote library with an EndNote Online account, go to Edit > Preferences.
A pop up box will appear. Navigate to the Sync section and enter your EndNote Online email address and password.
In the box under Sync this EndNote Library, you can see the location of your EndNote library.
If the Sync Automatically box is ticked, EndNote will sync your library each time you open it. Click Apply once you are happy with the changes.
EndNote Web/Online Classic
Creating a Library
An EndNote Online account is free and can be used independently without an EndNote subscription.
If you have EndNote installed on your computer and would like to access your EndNote library from multiple devices, you will need to sync your EndNote library with an EndNote Online account. EndNote X9 and EndNote 20 users should use the EndNote Online Classic while EndNote 21 users should use EndNote Web.
For EndNote X8 and earlier, you will need to upgrade to EndNote 20 to be able to sync your EndNote library.
You can import and export references into and out of your EndNote Online library. Accepted file formats for importing references are RIS (recommended), EndNote files & BibTex.
EndNote Online can export references in RefMan (RIS) (recommended), BibTex, EndNote, Refer Export or Tab Delimited formats.
Import references
There are a few ways to import references:
Unlike the EndNote desktop app, there is no way to upload PDFs to your EndNote Online library. You can create a record first (either through a database export file, manually or through EndNote Click) and upload an attachment (see the Managing PDFs tab of this section for more details) later.
Bulk import from a database
First, download your search results from a library database. For more information, see the Exporting Search Results section of our Literature Searching guide.
Manual/single entry
Go to Collect > New Reference to add a new reference or record manually. You will have to input details such as article title, author(s), year of publication, journal name, volume, issue etc.
Import from EndNote Click
Refer to the EndNote Click section to this guide for more information.
Export references
Go to Organize > Find Duplicates.
Any duplicate references in your EndNote Online library will be listed on this page. You can choose to delete the duplicate references or move to them to another folder.
Edit references
Delete references
Go to Organize > Manage My Groups to manage your EndNote Online groups.
To see the list of groups that have been shared with you, go to Organize > Others' Groups.
Uploading a PDF to a record
Managing PDFs
Go to Organize > Manage Attachments to view, download and delete any attachments in your EndNote Online library.
PDF attachments can also be deleted by clicking the blue paperclip icon on each reference/record and clicking the delete button.
Cite While You Write works with EndNote Online but you will need to manually download the Cite While You Write plug-in via the Downloads tab in your EndNote Online account.
Once the Cite While You Write plug-in is download, run it to install it and you will see the EndNote tab appear in the Microsoft Word toolbar/ribbon.
To insert a reference:
EndNote Click
Below is an example on PubMed:
Note: Currently, the View PDF button will only appear if the article's full text PDF is available on the article/journal website. If the full text PDF is not available, you will not be able to use EndNote Click to add it to your EndNote library. We recommend that you use the LibKey Nomad browser extension for a quicker way to get full text PDFs. You will have to be on the Eastern Health network (onsite or via Citrix) to get full text PDFs via LibKey Nomad.
After clicking on the View PDF button, you will be brought to the next page which contains a toolbar on the left side and a PDF preview on the right side.
There are a few options:
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