This is a superquick start guide that will enable you to analyze a few dozen samples without having to create an account or install any software besides your web browser and conversion software.
The limitations to this method is that the files uploaded will not reside in your own account (though no one else can see them) and will eventually disappear from GNPS.
Convert vendor formats to open formats using MSConvert locally. Documentation.
Please navigate to the super quickstart page. Simply drag and drop your mass spectrometry files (mzML, mzXML, or mgf) into the appropriate cohorts you want to compare. Files are required to be uploaded to Cohort Group 1.
Once files have been uploaded into the appropriate cohort, click the "Analyze Uploaded Files with GNPS Molecular Networking" button.
This will bring you to a GNPS workflow status page. Save this page url as this is your only way to retrieve this job.
To understand the results, please refer to the analysis section of the standard quickstart guide - link.