spacexr

spacexr analyzes cell types in spatial transcriptomics data.

Key Features:

• RCTD implementation: Learns cell type profiles from annotated RNA sequencing (RNA-seq) reference data and uses these profiles to identify cell types in spatial transcriptomic pixels while accounting for platform-specific effects.
• Bioconductor integration: Adapted to work with Bioconductor objects.

Scientific Applications:

• Cell type identification: Identifies cell types in spatial transcriptomic pixels using learned profiles from annotated reference data.

Methodology:

RCTD learns cell type profiles from annotated RNA-seq reference data and applies these profiles to identify cell types in spatial transcriptomic pixels while accounting for platform-specific effects.