Evernote: Cloud-based Project Documentation

Evernote is an online note taking platform. Notes can be written in rich text and contain links, images, and other types of attachments. Your notes are available through any of Evernote’s interfaces including the web.

In the context of GenomeBrowse, you can create a link to a genomic region, save an image of that region and note why that region was of interest. Later, you can share this note with others, who can explore the region on their own and add their own findings to the note.

Linking to an Evernote Account

Before notes can be created and saved, you must link VarSeq with Evernote. If you do not have an Evernote account, visit https://evernote.com/sign-up/ and register for a free account.

To connect your account, select File > Evernote > Connect to Evernote. Enter the email address and password you used when you registered with Evernote. Next, confirm that you want to allow VarSeq to have access to your notebooks.

VS Connect to Evernote

VarSeq Connect to Evernote Dialog

Creating a New Note

To create a new note select File > Evernote > New Note. A dialog will appear which will allow you to select the notebook in which the note will be stored, enter the note’s title, and add any tags that you would like to apply to the note. Multiple tags can be entered in the Tags: field using a comma to separate each tag.

VarSeq Create New Note in Evernote

VarSeq New Note Dialog

Opening an Existing Note

An existing note may be opened by selecting File > Evernote > Open Note. In the resulting dialog, select the desired notebook from the dropdown menu. A list of the twenty most recently edited notes in the selected notebook will appear in the list. Select the desired note and click Ok to open the note.

If the note you’d like to open does not appear in the initial note listing, you may search for it. By default, whole words will be matched against the title, contents or tags of notes in the selected notebook. A wild card can be used at the end of a search term to find all items starting with the term (e.g. gen* will match gene, genome, genetics, etc).

VarSeq Open Note in Evernote

VarSeq Open Note Dialog

Editing a Note

After opening an existing note or creating a new note, a note editor will be shown. If an existing note is being edited, the editor will be pre-populated with that note’s content.

Text can be entered and formated using the dialog’s controls, just as you would when using a word processor.

The Evernote dock window contains the following items (from left to right):

  • Status message: The note’s status. Notes are automatically saved to your Evernote notebook whenever you stop typing.

  • Insert Bookmark: Inserts a genomic coordinate bookmark. These bookmarks are links within GenomeBrowse that will jump to the region of the genome that was in view when the bookmark was set.

  • Insert Screenshot: Inserts a cleaned up screenshot of all active plots at the current zoom into the note. This “screenshot” displays the plots via the Save as Image controls. See Saving Plots from a GenomeBrowse Window for more information. The image is inserted at the cursor’s current position or at the end of the note if no cursor is present.

  • Insert Screenshot of Selected: Inserts a cleaned up screenshot of the selected plot(s) at the current zoom into the note. This “screenshot” displays the plots via the Save as Image controls. The image is inserted at the cursor’s current position or at the end of the note if no cursor is present.

  • Share Note with Public URL: Opens a dialog with a generated URL that can be copied and pasted to share a notebook as an HTML page. This facilitates sharing a note or results with someone who does not have Evernote access.

    Note

    As the note is edited or updated the content in the shared HTML page will be updated as well.

The rest of the toolbar contains standard text editing controls.

VarSeq Edit Note in Evernote

VarSeq Edit Note Dialog