Frequently Asked Questions

A section to quickly get FAQs about Proteome Software products

• CID, ETD, HCD, and Other Fragmentation Modes in Scaffold
• Waters PLGS IdentityE Data Support in Scaffold
• FDR, Decoy Hits, and Forward/Decoy FASTAs in Scaffold
• Using MudPIT in Scaffold Analyses
• Parentheses in Scaffold Excel Exports
• Getting Started with Gene Ontology Annotations in Scaffold
• How do I add organism-specific GOA databases to Scaffold
• What do the Quantitative Value Tags Mean: Value Missing, No Values, Reference Missing, or No Data
• Where can I find general, in-product help