Simulated Kidney SpatialExperiment Data

A dataset containing three simulated spatial transcriptomics experiments of kidney tissue. Each element is a SpatialExperiment object with one gene, simulated for A and C to be similar spatial expression patterns and B to have an opposite spatial expression pattern.

Usage

data(speKidney)

Format

A named list with three elements: A, B, and C. Each element is a SpatialExperiment object with:

assays

A single counts matrix (1 × N), where N is the number of cells.

rownames

One gene: "Gene".

colnames

Unique spot/cell IDs (cell1, cell2, ...).

colData

Contains one variable: sample_id.

spatialCoords

Two spatial coordinates: x, y.

Dimensions:

• A: 1 gene × 1229 cells

• B: 1 gene × 1242 cells

• C: 1 gene × 1297 cells

Source

Simulated for demonstration purposes.