galaxyproject / galaxyproject/galaxy
[WIP] Image file format support
- Dominant language
- Python
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Description
My wishlist of image formats that are heavily used in life sciences and should be supported by Galaxy:
- [ ] DICOM #18895
- [x] NIfTI https://github.com/galaxyproject/galaxy/pull/11020
- [x] ome-tiff https://github.com/galaxyproject/galaxy/pull/11801
- [ ] TIFF(pyramidal tiled TIFF, BigTIFF) with endings .svs, .tif, ...
- [ ] Bioformats https://docs.openmicroscopy.org/bio-formats/5.9.2/supported-formats.html
Can't we just check for most of them by file signature like https://en.wikipedia.org/wiki/List_of_file_signatures
Contributor guide
Research direction
Start by reviewing the remaining checklist in this issue and the referenced pull requests, especially #18895, #11020, and #11801, to understand Galaxy's existing image-format support. Define the scope for the uncompleted formats and file-signature detection, then confirm that each selected format is recognized and usable in Galaxy.
Written by the indexing model from the issue text.
Assessment
- Domain
- bioinformatics
- Issue type
- Feature
- Difficulty
- 5/5
- Estimated time
- Over a week
- Activity status
- Stale
- Clarity
- Needs clarification
- Newbie friendliness
- 25/100