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NEWS

• Added C++ code to speed up STenrich computations (Thank you, Dr. Soupir!).
• The STenrich function can now calculate gene set enrichment scores (via GSVA) in addition to gene set average expression.
• The STenrich function can now test for gene set “hot-spots” within an specific tissue domain (annot and domain arguments).
• Spatial distances can now be log-transformed for STgradient (log argument).
• Example data sets are now in the spatialGE_Data GitHub repository.
• New functions spatial_metadata and tissue_names to quickly access the names of spot/cell annotations and sample names.
• Re-assessed package dependencies.
• Use of DelayedArray for some calculations.
• Several bug fixes.

• Functions STenrich, STgradient, and STdiff available.
• Added C++ code for Seurat’s implementation of FindVariableFeatures

• Multiple, significant changes to STlist (incompatible with STlist objects from version 1.0).

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