mzmine source code repository

Software for the analysis and interactive exploration of spectral imaging data

collection of mass spectrometry imaging workflows

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

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

Tool for converting mass spectrometry data to the imzML format.

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

Shiny App for Mass Spectrometry Imaging

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

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

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

SPUTNIK R package

A common data format for mass spectrometry imaging

Nanoneedles Enable Spatiotemporal Lipidomics of Living Tissues

Quantitative Mass Spectrometry Imaging

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

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

Scripts used for the paper Inglese, P., Correia, G., Pruski, P., Glen, R. C., & Takats, Z. (2019). Colocalization features for classification of tumors using desorption electrospray ionization mass spectrometry imaging. Analytical chemistry.