Nat Methods
PhD candidate at M4i, Maastricht University, working on mass spectrometry imaging, spatial multi-omics, and the open-source software that brings them together.
Software
Python library and command-line tool that converts mass spectrometry imaging data (Bruker, Waters, PHI and imzML) into the SpatialData/Zarr format, so MSI can be analysed alongside other spatial omics data. It handles datasets larger than memory and keeps ion mobility and MS/MS data.
pip install thyraRecent
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A side project is now public: Mikiri, a computer vision app that analyses badminton video on your own computer.
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About
I am a PhD candidate at M4i, Maastricht University, in the group of Eva Cuypers. I work on single-cell multi-omics data integration, analysis and management, and above all on bringing mass spectrometry imaging (MSI) into it.
MSI can add a breadth of molecular information to multi-omics, but only once its data fits into the frameworks the rest of the field already uses. Much of my work is the software for that: Thyra, which converts MSI data into the SpatialData format, and contributions to spatialdata, spatialdata-io and zarr-python. Outside the PhD I learn computer vision and machine learning by building Mikiri, an app that analyses badminton video.
Before the PhD, I studied analytical chemistry at the Maastricht Science Program, with a bachelor's thesis under Maarten Honing on liquid chromatography, mass spectrometry and ion mobility spectrometry. I then spent a year in his group finishing that work and developing flow chemistry sensors for process analytical technology. For my master's in Molecular Imaging & Engineering at Maastricht University, supervised by Ron Heeren and Maarten Honing, I used MSI to map the spatial molecular heterogeneity of plant-based meat alternatives, and picked up machine learning for imaging data along the way.
You can reach me at my university address.