SBT · Tissue Explorer

Load workspace

Save your view to a JSON file.

Selected view View name

Up to four named presets. Pan and zoom are linked. Click a pane to edit its channels and overlay.

Open your dataset

Choose files from your computer. Your data stays here.

AnnData Choose .h5ad Masks Choose folder Images Choose folder

Cell identity columns

ROI column Mask object ID

Open AnnData to find your regions.

Order by Direction

Ordered by ROI name · ascending.

Quick jump: first X ROIs

● Unvisited ● Some views ● All views

Visits follow the current channel, contrast, normalisation and overlay settings.

Mix up to six channels. Untick a channel to hide it.

Dictionary Choose CSV / JSON

Optional Nimbus / NapariSBT dictionary. Image display only.

Fallback settings

With a dictionary loaded, unmatched channels use these settings. Minimum counts applies to all channels.

Fallback quantile (0–1) Minimum pixel counts

Colour by

AppearanceOpacity

Show population

Open an AnnData file and your image and mask folders.
Move from populations to individual cells, in one view.

.h5adTIFF masksTIFF images

Ready to open a local dataset.

Cell details & embeddingHide panelShow panel

No cell selected

Click a segmented cell to see its AnnData observations.

Current ROI · click a point to inspect the same cell