Data Analysis

References and local tool guides for LC-MS data analysis

Guides and reference material for analyzing LC-MS data on the UWPR systems, from interpreting search results to running the analysis software on our Linux cluster. Online calculators, viewers, and downloadable utilities are on the Data Analysis Tools page.

Shotgun Proteomics

• A primer on interpreting peptide ID results

Software Protocols

• Comet commands on UWPR systems (UWPR users only)
• Running Crux on UWPR systems (UWPR users only)
• Running Abacus on UWPR systems (UWPR users only)
• Setting up ReAdW and Wine for Thermo raw file to mzXML conversion under Linux

Helpful Reference Tables

• Amino Acid Mass Table
• Common mass spec contaminants (xls)