Automated Mass Spectral Deconvolution and Identification System (Windows only), is utilized primarily for the extraction of spectra from GC/MS data files.

MS-DIAL

The MS-DIAL software is able to utilize LC-MS/MS or GC-MS raw data from any vendor, including deconvolution, alignment, and compound identification.

XCMS

XCMS provides a framework for processing and visualization of chromatographically separated and single-spectra mass spectral data including untargeted metabolomic analyses.

MZmine 3

Mzmine 3 is an open-source software tool for mass spectrometry data processing, primarily for LC/MS data.

MetaboAnalyst

MetaboAnalyst is a free online tool for univariate and multivariate statistics, including data normalization and transformation.

ProteoWizard

Proteowizard is a modular and extensible set of open-source, cross-platform, tools and libraries for the processing of mass spectrometry data.