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Tools: BioIO replaces AICSImageIO #268

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Nov 19, 2024
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Tools: BioIO replaces AICSImageIO #268

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14 changes: 8 additions & 6 deletions tools/index.md
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Expand Up @@ -90,12 +90,6 @@ A Nextflow based command-line tool that wraps bioformats2raw for parallelised co
Various libraries for reading/writing OME-Zarr files in Python were evaluated as part of the BioVisionCenter "Next generation bioimage analysis workflows hackathon" 2023 in Zurich, Switzerland: https://github.com/jwindhager/ome-ngff-readers-writers/.


### AICSImageIO
<https://github.com/AllenCellModeling/aicsimageio>

Image Reading, Metadata Conversion, and Image Writing for Microscopy Images in pure Python.


### bfio
<https://github.com/PolusAI/bfio>

Expand All @@ -108,6 +102,14 @@ A Python interface to Bioformats using jpype for direct access to the library.
A standalone Java library for reading and writing life sciences image file formats.


### BioIO
<https://github.com/bioio-devs/bioio>

(formerly AICSImageIO <https://github.com/AllenCellModeling/aicsimageio>)

Image Reading, Metadata Conversion, and Image Writing for Microscopy Images in pure Python.


### ngff-zarr
<https://github.com/thewtex/ngff-zarr>

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