Scaffold 4.8.8 introduced support for Wiki Pathways. To access pathway information from Scaffold, follow the following steps.
- Load data with gene names as the alternate ID
- Select a protein of interest
- Select the Wiki Pathways option from the dropdown menu
- Click on the gene name button in the web lookup pane (found in the bottom left-hand corner of the Samples view)
- View all of the pathways related to that protein in your web browser