R: Infer Cell-Cell Communication from Spatial Transcriptomics

# Infer Cell-Cell Communication from Spatial Transcriptomics

## Documentation for package ‘blisa’ version 0.2.0

- DESCRIPTION file
- User guides, package vignettes and other documentation
- Package README

## Help Pages

blisa-package | blisa: Bivariate Local Indicator of Spatial Association for spatial transcriptomics
blisa | Run BLISA spatial cell-cell communication analysis
blisa.default | Run BLISA spatial cell-cell communication analysis
blisa.SpatialExperiment | Run BLISA spatial cell-cell communication analysis
computeSpatialWeights | Compute Spatial Weights for BLISA
filterLRpairs | Filter ligand-receptor pairs by expression threshold
hexBinCells | Bin cells into hexagonal spatial bins
is.blisa | Test if an object is a blisa object
plotCCI | Heatmap of CCI scores across all ligand-receptor pairs
plotCCI.blisa | Heatmap of CCI scores across all ligand-receptor pairs
plotCCI.default | Heatmap of CCI scores across all ligand-receptor pairs
plotCCILR | Sender-by-receiver heatmap of CCI scores for one ligand-receptor pair
plotCCILR.blisa | Sender-by-receiver heatmap of CCI scores for one ligand-receptor pair
plotCCILR.default | Sender-by-receiver heatmap of CCI scores for one ligand-receptor pair
plotCCIspatial | Spatial map of dominant sender-receiver cell-type pairs at BLISA hotspots
plotCCIsummary | Sender-by-receiver heatmap of aggregated CCI scores across LR pairs
plotCCIsummary.blisa | Sender-by-receiver heatmap of aggregated CCI scores across LR pairs
plotCCIsummary.default | Sender-by-receiver heatmap of aggregated CCI scores across LR pairs
plotHotspots | Spatial hotspot map for one ligand-receptor pair
plotHotspots.blisa | Spatial hotspot map for one ligand-receptor pair
plotLRrank | Dot plot ranking LR pairs by number of significant hotspot bins
plotLRrank.blisa | Dot plot ranking LR pairs by number of significant hotspot bins
plotLRrank.data.frame | Dot plot ranking LR pairs by number of significant hotspot bins
runCCI | Score cell-cell interactions from BLISA hotspots
runCCI.blisa | Score cell-cell interactions from BLISA hotspots
runCCI.default | Score cell-cell interactions from BLISA hotspots