MS Search Tutorial/Guide

Great explanations for what goes on inside a MS based proteomics search engine.

Mascot help and tutorials index

Sage Search Engine

Download the executable from releases tab. See documentation site for how to use/search.

GitHub - lazear/sage: Proteomics search & quantification so fast that it feels like magic

Tar TimsTOF Data (for IP2 upload)

Go to releases and download the tar app.

GitHub - pgarrett-scripps/timsTofExtractorGUI: A GUI to convert Bruker Raw files (.d) to an .ms2 file format