BioNGFF Viewer

Monorepo while testing around

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