Version 3.9.4

What's Changed

• added ability to set more URL variables and fixed bug removing FLGINT… by @TJBrunson in #6
• made initConfig protected by @TJBrunson in #7
• added a way to provide alternative Google analytics tokens and domains by @TJBrunson in #8

New Contributors

• @TJBrunson made their first contribution in #6

Full Changelog: v3.7...v3.9.4

Version 3.7

• New features:

  • State of art Gene Set Analysis (GSA) available
  • Citation button to give the right citation abstract ready to use in your publication / research #2
  • Clear differentiation between a normal Enhanced High Level Diagram (EHLD) and a disease EHLD
    • Disease pathway names are displayed in red #4
  • Reacfoam integration.

• Bug fixes:

  • #3
  • #5
  • Discrepancy between AnalysisService and Analysis result in the PathwayBrowser when Include disease filter was present.

• Deprecated:

  • GenomeSpace feature has been removed as the service has ended.

Version 3.6.1

• New features:

  • Tissue specific expression analysis added in the analysis submission interface
  • Analysis PDF report added in the Analysis tab of the details panel
  • Diagram and Fireworks widgets updated to the version supporting SOLR search
  • Check for consistency between graph-database version and the pathway analysis service
  • More "user friendly" error message when a connexion problem is detected.
  • Analysis submission interface now shows a link to the user documentation.
  • Look and feel updated to match branding changes
  • Download tab buttons grouped in 2 main categories with new options added (SVG, PNG, JPEG, GIF, PPTX)
  • Title and styling of analysis examples changed
  • Full support for drug physical entities.

• Bug fixes:

  • Long molecule names in the molecules tab were overflowing the available space
  • Molecules tab bug fixed: irresponsive behaviour when switching between details panel tabs

Version 3.5.0

• New features:

  • GTW updated to version 2.8.1.
  • Enhanced high level diagrams are now available.
  • Reactome logo updated.
  • Cleaner look&feel for the details panel.
  • Flagging mechanism enabled in the pathways overview widget and the diagram.
  • New version of GXA widget.
  • Literature references added for summation and event panels.
  • Carrousel widget detached as an independent package.
  • Dependences updated to use HTTPS.
  • Connected to the ContentService RESTFul API.
  • Error messages improved.
  • New version of the tour video.

• Bug fixes:

  • Species orthology

Version 3.2.0

• New analysis submission tool in a wizard-like format with integrated user documentation for the different analysis options.
• Updated analysis tab in the details panel to show results for analysis including interactors.

Version 3.1.0

New features

• The major new feature in this version is the implementation of the interactors overlay in the diagram viewer.
  • It shows a number (inside a red circle) on the top right corner of every protein/chemical that has interactors for the selected resource.
  • When the number is clicked, the interactors are shown in a radial layout. Interactors are shown as boxes for proteins and ellipses for chemicals.
  • The search box on the top left corner of the diagram viewer also takes into account the loaded interactors for the selected resource, so when the user searches for protein/chemical identifier that is not present in the diagram, but interacts with any of the present ones, the search result will show the interactors. Please note that interaction identifiers are also searchable in the diagram search-box.
• Settings panel moved from a button (with a shape of a gear) on the top right corner to its own panel (which slides from the right hand side).
  • The new panel contains all the previously available options on the settings menu and an easy interface for the interactors configuration for the diagram viewer.

Version 3.0.0

It contains the first production-ready version for Reactome Pathway Browser version 3