mzmine source code repository

Software for the analysis and interactive exploration of spectral imaging data

collection of mass spectrometry imaging workflows

Mass spectrometry imaging applications for interactive analysis in MITK (M²aia)

Tool for converting mass spectrometry data to the imzML format.

A modern Python library for converting Mass Spectrometry Imaging (MSI) data into standardized SpatialData/Zarr format, enabling seamless integration with spatial omics analysis workflows.

Shiny App for Mass Spectrometry Imaging

Divisive Intelligent K-Means algorithm (DiviK) for joint feature selection and clustering of heavily multidimensional data.

A tool for mass spectrometry data analysis.

pyM²aia is a Python package for memory-efficient access and processing of mass spectrometry image data. The I/O functionality is derived from the interactive desktop application M²aia. Special features are the batch generator utilities for deep learning applications.

A 3D Slicer module for end-to-end analysis of mass spectrometry imaging data

This framework allows to perform scRNA-seq-like analyses of imaging mass-spectrometry data. Check out the example jupyter-notebook in examples/

Analysis of matrix-metabolite adducts in MALDI mass spectrometry imaging datasets

SPUTNIK R package

Quantitative Mass Spectrometry Imaging

A common data format for mass spectrometry imaging

Nanoneedles Enable Spatiotemporal Lipidomics of Living Tissues

This project provides an Spectre's implementation of Data Mining Group's algorithms for processing mass spectrometry imaging (MSI) datasets.

Default preprocessing pipeline for MSI data in raw ASCII format based on Gaussian Mixture Modeling (GMM)

Julia msi GUI is a Graphical User Interface for mass spectrometry imaging based on the functions of the linked repository which generates images using imzML files