An assistant for Swath analysis.

The Wizard takes the user through the whole analysis pipeline for SWATH proteomics data analysis, i.e. the TOPP_OpenSwath workflow, including downstream tools such as pyProphet and the TRIC alignment tool.

Since the downstream tools require Python and the respective modules, the Wizard will check their proper installation status and warn the user if a component is missing.

Users can enter the required input data (mzML MS/MS data, configuration files) in dedicated fields, usually by drag'n'droping files from the operating systems' file explorer (Explorer, Nautilus, Finder...). The output of the Wizard is both the intermediate files from OpenSWATH and the tab-separated table format (.tsv) from TRIC.

A recommended test data for the Wizard is the PASS00779 dataset.