spatialLIBD

spatialLIBD provides interactive visualization and analysis of spatially resolved transcriptomics data to map gene expression to tissue coordinates and support exploration of spatial gene expression patterns.

Key Features:

• Interactive visualization: Supports interactive visualization and inspection of spatial gene expression and tissue images.
• 10x Genomics Visium integration: Supports import and integration of data from the 10x Genomics Visium platform, including gene expression matrices and spot spatial coordinates.
• Cluster analysis: Provides functions to examine data-driven clusters identified through supervised or unsupervised analyses across spatial coordinates.

Scientific Applications:

• Spatial mapping of gene expression: Enables precise mapping and visualization of gene expression within intact tissues to analyze spatial organization of gene activity.
• Cellular heterogeneity and tissue architecture: Supports characterization of cellular heterogeneity and tissue architecture via spatial expression patterns.
• Developmental biology: Applicable to developmental biology studies to resolve spatial gene expression during tissue development.
• Cancer research: Applicable to cancer research to investigate tumor microenvironment and spatially localized gene activity.
• Regenerative medicine: Applicable to regenerative medicine to study spatial patterns relevant to tissue repair and regeneration.

Methodology:

Implements analysis and visualization within R/Bioconductor using its statistical and graphical capabilities.