MacCoss Lab Proteomics Analysis Documentation

Analysis Workflows

DDA using Comet
Open Modification DDA using Magnum
De novo DDA using Casanovo
DIA Analysis
Carafe

Helper Guides

Setting up Limelight Credentials
Setting up PanoramaWeb Credentials
Connecting to a GSIT (Nexus) via SSH
Getting Help

MacCoss Lab Proteomics Analysis Documentation

Getting Help
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Getting Help

If you have any problems with any of the workflows, please contact Michael Riffle at mriffle@uw.edu.

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© Copyright 2025, Michael Riffle.

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