iohub¶

N-dimensional bioimaging produces data and metadata in various formats, and iohub aims to become a unified Python interface to the most common formats used at the Biohub and in the broader imaging community.

Read¶

• OME-Zarr (OME-NGFF v0.5, OME-NGFF v0.4)
• Micro-Manager TIFF sequence, OME-TIFF (MMStack), and NDTiff datasets
• Custom data formats generated by Biohub microscopes
  • Supported: Falcon (PTI), Dorado (ClearControl), Dragonfly (OpenCell OME-TIFF), Mantis (NDTiff)
  • WIP: DaXi

Write¶

• OME-Zarr (OME-NGFF v0.5, OME-NGFF v0.4)
• Multi-page TIFF stacks organized in a directory hierarchy that mimics OME-NGFF (WIP)