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A compact redistribution of spatial coordinates and manually annotated cortical layers for 47,329 spots from 12 sections and three donors in the Maynard et al. human DLPFC study. It also contains 45 frozen, anatomically constrained label-corruption scenarios. Expression counts and tissue images are deliberately excluded.

Usage

data(dlpfc_benchmark)

Format

A list with the following elements:

xy

A 47,329 by 2 coordinate matrix.

truth

Integer reference-layer codes.

initial

A 47,329 by 45 matrix of corrupted label codes.

levels

Seven cortical-layer names.

samples

Section identifiers.

subject

Donor identifiers.

boundary

Logical boundary indicator.

sparse

Logical sparse-layer indicator.

design

Scenario corruption design.

metadata

Source, license, and citation information.

References

Maynard KR et al. (2021). Transcriptome-scale spatial gene expression in the human dorsolateral prefrontal cortex. Nature Neuroscience 24, 425-436.

Pardo B et al. (2022). spatialLIBD: an R/Bioconductor package to visualize spatially-resolved transcriptomics data. BMC Genomics 23, 434.