Special Help Topics
Collection of help topics that help users optimize their use of Proteome Software products
- Determining Isolation Windows in DIA Raw Files
- DIA Proteomics Workflows: Choosing the Right Library
- Data Independent Acquisition Proteomics Resources - DIA Tips
- Upgrading Scaffold, Workstation Hardware, or your Operating System
- Updating MSConvert in Scaffold DIA
- UniProt FASTA References
- Moving Proteome Software Products from One Computer to Another
- Thermo Windowing Schemes for DIA Proteomics
- Chromatogram Libraries Improve Peptide Detection and Quantification by DIA Mass Spectrometry
- Searching FASTAs with Scaffold DIA, Resource-Intensive Process
- Isobaric Tagging (TMT, iTRAQ) and mzIdentML/MGF Files
- Accessing Wiki Pathway information from Scaffold
- Scaffold DIA FASTA Searches Do Not Support Multiple Variable Modifications
- Correcting Accession Number Issue with New Uniprot GO Annotation Files
- Gene Ontology: Custom Annotations in Scaffold
- Running Multiple Instances of Scaffold on One Computer
- The Benjamini-Hochberg Correction
- Use of the Chromatographic System Feature in Scaffold Elements
- Basic Scaffold Workflow
- License Key Tips -- Working with Proteome Software Keys
- TMT Quantiation Settings in Proteome Discover 2.x
- Location of Scaffold Software Parameter and Key Files
- Replacing JRE in Scaffold when running Mac OS X
- Replacing Bundled JRE in Proteome Software Products
- Custom Modifications from Mascot Server in Scaffold