Thyra Opens MSI to Multimodal Analysis

The open-source library connects mass spectrometry imaging with histology and spatial transcriptomics

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Thyra is an open-source library that converts mass spectrometry imaging data into SpatialData objects for multimodal analysis.
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The software supports raw vendor files and imzML, harmonizes mass-to-charge axes, and processes datasets larger than available computer memory.
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Thyra stores ion images, spectra, and pixel coordinates in a shared physical coordinate system and writes outputs in cloud-compatible Zarr v3.
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The authors demonstrated integration of MSI, hematoxylin and eosin histology, and Xenium spatial transcriptomics in a mouse brain dataset.
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The authors noted that MSI pixel size, tissue deformation, and image-registration accuracy limit interpretation, and the current release does not preserve ion-mobility data.

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