MGF to mzML File Converter
Clinical-grade browser conversion for mass spectrometry peak lists. Convert Mascot Generic Format files into HUPO-PSI mzML XML locally for strict data privacy.
Drop your .mgf file here
or click to browse from your workstation
Upload an .mgf file to begin secure local conversion.
How to convert MGF to mzML online.
Step 1: Upload your MGF peak list file
Drag and drop your .mgf file or browse from local storage.
Step 2: Wait for local parsing and encoding
The converter parses each BEGIN IONS block, extracts metadata and peak pairs, then encodes m/z and intensity arrays to Base64.
Step 3: Download your mzML XML output
Save the generated .mzML file and continue with your downstream analysis pipeline.
Is it safe to process proprietary mass spec data online?
Yes. This tool uses a local-first architecture where all parsing and XML generation happen inside your browser memory. No backend APIs are used and no research data is transmitted to external servers.
What is an MGF file?
MGF (Mascot Generic Format) is a text-based format that stores MS/MS peak lists in spectrum blocks marked by BEGIN IONS and END IONS, often with metadata fields such as TITLE, PEPMASS, and CHARGE.
What is an mzML file?
mzML is the HUPO-PSI XML standard for mass spectrometry data exchange. It combines structured metadata with encoded binary arrays for m/z and intensity values, making it interoperable across bioinformatics software ecosystems.
Frequently Asked Questions
Why are mzML files larger than MGF?
mzML uses XML markup and embeds Base64-encoded arrays, so output is typically larger than compact text-only peak list formats.
Can I convert large MGF files in-browser?
Yes. Performance depends on available RAM and browser limits, but this converter is optimized for staged processing and efficient array encoding.
Is this suitable for clinical and confidential data?
The conversion is client-side only, which supports strict privacy requirements. Always follow your institutional data governance policies.