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Probe

The probe ring moves in a figure-eight over the raster bins, and the bins recolor by similarity to the bin under the ring.

Hover a bin with Probe on; similar bins light up. Click to pin the query.

Probe compares raster bins, so switch the map to raster first ( points/raster; see Color & layers).

import milume
w = milume.peek(adata, genes=["GeneA", "GeneB", "GeneC"])
w.set_render_mode("raster")  # then press P and hover

Controls

Control What it does
Probe (P) Hover a bin to color every bin by its similarity to it; click to pin that bin.
Similarity legend Color scale from 0 (dissimilar) to 1 (identical), shown in the right panel while Probe is on.
Esc Clear the probe.

With the genes tab active, similarity uses the picked genes; pick at least one gene first, or hovering does nothing.

Pinned query

A pinned probe ring on the raster, with the Similarity legend from 0 to 1 in the right panel under the gene densities. A pinned probe ring on the raster, with the Similarity legend from 0 to 1 in the right panel under the gene densities.

Python

w.raster_similarity_enabled = True  # similarity coloring without the Probe tool
w.raster_threshold = 0.5            # similarity cutoff for the map
w.raster_query_bin                  # pinned bin index, -1 when none
w.clear_raster_query()

See Synced traitlets and Methods.

Color & layers →Points or raster Navigate →Pan, zoom, minimap Inspect in 3D →Cube orbit and slice