🚧 BioNGFF Viewer 🚧

Web viewer for bioimaging data. Built to support NGFF specifications. Leverages Vizarr.

Demo

The viewer is built from the main branch and deployed with GitHub pages. Images are specified in the URL with the source parameter: e.g.

https://biongff.github.io/biongff-viewer/?source=https://uk1s3.embassy.ebi.ac.uk/idr/zarr/v0.4/idr0101A/13457537.zarr

Development

Clone repo and submodules

git clone [email protected]:BioNGFF/biongff-viewer.git
cd biongff-viewer
git submodule init
git submodule update

Install dependencies and run development server

pnpm i
pnpm run dev

Pass the resource to load through the URL source parameter e.g.

http://localhost:5173?source=https://haniffa.cog.sanger.ac.uk/breast-cancer/xenium/0.0.1/morphology_mip.zarr

or visualise a standalone label image

http://localhost:5173/?source=https://hindlimb.cog.sanger.ac.uk/datasets/integrated-test/0.0.1/rotated/hindlimb-iss-rotated_90-label.zarr&isLabel=1