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README

Reference implementation for the SpatialMetabolomics processing pipeline

What is this repository for?

This is a reference implementation of our pipeline for annotating high-resolution imaging mass spectrometry data. It is scientific code for demonstration purposes only.

How do I get set up?

Processing a dataset

  • Data should be in .imzml format
  • The pipeline currently only supports centroid data
    • using centroided data is highly recommended for run time and annotation performance

Contribution guidelines

  • Run it, see what happens, ask Andy questions

Who do I talk to?

[email protected]

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python tools for spatial metabolomics analysis

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