Spatial transcriptomic clustering

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Documentation for package ‘Banksy’ version 1.4.0

• DESCRIPTION file.
• User guides, package vignettes and other documentation.
• Package NEWS.

Help Pages

clusterBanksy	Perform clustering in BANKSY's neighborhood-augmented feature space.
clusterNames	Get names of clustering runs.
compareClusters	Compare cluster outputs based on various clustering comparison measures.
computeBanksy	Compute the component neighborhood matrices for the BANKSY matrix.
connectClusters	Relabel cluster labels across parameter runs to maximise their similarity.
getBanksyMatrix	Builds the BANKSY matrix from neighborhood matrices.
hippocampus	Mouse Hippocampus VeraFISH data
rings	An unrealistic simulation of spatially-resolved omics data.
runBanksyPCA	Run PCA on a BANKSY matrix.
runBanksyUMAP	Run UMAP on a BANKSY embedding.
simulateDataset	Simulate an unrealistic spatial omics dataset.
smoothLabels	k-Nearest neighbor cluster label smoothing.