METASPACE docs

Appearance

METASPACE Converter ​

What it is ​

METASPACE Converter is a Python package for downloading and converting METASPACE annotation results into standardized spatial omics data formats — specifically AnnData and SpatialData. This allows you to take annotation results directly into Python-based analysis workflows without manual data wrangling.

When to use it ​

  • When you want to perform downstream analysis on your annotation results in Python using tools like scanpy or squidpy.
  • When you need your data in AnnData or SpatialData format for compatibility with the broader spatial omics ecosystem.
  • When you are building custom workflows that integrate METASPACE with other Python-based tools.

How to use it ​

Full installation instructions, API reference, and usage examples are available in the METASPACE Converter documentation.