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Wiki pages can be written using text, Markdown, or basic HTML. Additionally, you can embed dynamic content based on other resources stored in Synapse.
A wiki inherits its sharing settings from the project, folder, or file it is associated with, and it cannot have separate sharing settings. Anyone with ‘view’ permissions or greater can see the content of the wiki page. When a project, folder or file is shared with the public, the associated wiki is visible to viewers who are not logged in to Synapse.
Create,
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Edit, and
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Delete a
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Wiki
Create a new project, then select the Wiki tab. Navigate to the Wiki Tools menu and select the Edit Project Wiki function. Content in this first wiki becomes your project’s home page. Go to the Wiki Tools menu to add subpages to your wiki. These will appear as links on the left side of your home page.
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The layout and text of a wiki can be customized using standard Markdown notation. In the web interface, a formatting guide is available within the wiki editing window. For a reference of Markdown formatting see the Markdown Formatting Guide. Useful Markdown shortcuts are also available in the wiki editor tool bar, including: heading, bold, italic, strike-through, code block, subscript and superscript. You can also insert links to any URL source.
Create
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Page Hierarchy with
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Subpages
A project wiki can have subpages, which will appear nested below the main wiki page. Creating subpages will also create a navigation bar on the right side of the screen that lists the wiki subpages in the order they were created. Links to wiki subpages include the project ID, the wiki path, and the ID of the wiki page (e.g. https://www.synapse.org/#!Synapse:syn150935/wiki/27376). The subpage ID can be found in the browser URL bar when the subpage is viewed.
To add a subpage, use the Wiki Tools menu and then click Add Wiki Subpage. You can edit this sub-page like any other wiki page through the Wiki Tools menu and Edit Project Wiki.
Modify
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Page Order
By default, wiki pages are created at a single level, or without a page hierarchy. As your wiki evolves over time, you may want to change the order and hierarchy of pages. To do this, click the Edit Order button below the wiki page navigation bar to change both the order and hierarchy of pages within a particular level. Click Edit Order, and then select the page you want to move. Use the arrow buttons to move the page up or down in your page tree. Use the left and right arrows to nest subpages deeper or promote them higher in a page hierarchy. When you are finished, click Done to save your work. Note that only users with the ability to edit the wiki content have the ability to edit the wiki order. Changing the wiki order does not change the synID of the wiki page.
Wiki
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Widgets
Widgets are Synapse features that can be added to supplement any Markdown text and customize your wiki. These include inserting images, tagging individuals, querying tables, and more. Use the Insert menu at the top of the wiki editor window to select a widget. Each of these widgets is described in the following table.
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Widget | Description |
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Attachment | Attach a file from your local computer to the wiki. |
Button Link | Insert a button that links to content within Synapse or elsewhere. Tip: buttons can be colored purple by adding |
Collapsible Section (Details/Summary) | Insert a label or heading that you can click to expand and reveal additional text. |
Entity List | A list of Synapse folders, files or tables can be created by browsing to the Synapse location or searching by entity name or Synapse ID. The table lists entity name, date entity was created, who created it, and version and version notes (if selecting files, tables, or views). |
File Preview | Embeds a preview window for .csv, .txt, and image files |
Genome Browser | You can add a Biodalliance genome browser using tracks from files uploaded to Synapse or from external sources. Choose between Human or Mouse and adjust your tracks for height and color. See the Biodalliance Setup page for more information. |
Image | Embeds an JPG, PNG, GIF or SVG. The image can be uploaded, from the web, or from a Synapse file. Note: Images file names that have certain words (ie, ‘ad’) could be blocked if you are using an adblocker. |
Join Team Button | Provide a button for people to join Synapse /wiki/spaces/DOCS/pages/1985446029. |
Link | Insert a URL or Synapse ID linked to text. |
Provenance Graph | Embeds the provenance graph created for a file. |
Reference | Create a reference list by linking to papers using the References widget |
Simple Plot | Insert a simple bar chart from a file or table. |
Submit to Evaluation | Create a button for users to submit their entries to a Synapse challenge. |
Table: Paste tabular data | A table can be created of any data by pasting tab delimited content into this widget window. |
Table: Query on a Synapse Table/View | Provides a query for any Synapse table or view and displays the information in the wiki. |
Table of Contents | Creates a content list that links to sections of the wiki based on headers and subheaders |
Team Badge | Creates a link to the team profile. |
Team Member Count | Select a team to display the team member count. |
Team Members List | Select a team to display a table of the team member names, institutions, and Synapse email addresses. |
User | Tag a user by entering their Synapse username. You can also do this by typing ‘@’ while editing a wiki and enter the Synapse username or part of their full name in the dialog that appears. |
Video | Video, Vimeo Video, and YouTube Video insert a video from various sources. |
Widgets in
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Experimental Mode
Some widgets are available only in experimental mode, or alpha mode. These widgets are still under development but are available for public use. To access these widgets, navigate to the lower right hand corner of your screen in Synapse, and click Experimental Mode Off. Read the experimental mode statement and click OK. Navigate back to a wiki page, where a new @ Insert menu option will appear at the top of the wiki editing window with a list of widgets in development. Use these widgets with caution, as they may change in the future and data created using them could be lost during upgrade.
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