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This is the development version of lisaClust; for the stable release version, see lisaClust.

lisaClust: Clustering of Local Indicators of Spatial Association

Bioconductor version: Development (3.20)

lisaClust provides a series of functions to identify and visualise regions of tissue where spatial associations between cell-types is similar. This package can be used to provide a high-level summary of cell-type colocalization in multiplexed imaging data that has been segmented at a single-cell resolution.

Author: Ellis Patrick [aut, cre], Nicolas Canete [aut], Nicholas Robertson [ctb]

Maintainer: Ellis Patrick <ellis.patrick at>

Citation (from within R, enter citation("lisaClust")):


To install this package, start R (version "4.4") and enter:

if (!require("BiocManager", quietly = TRUE))

# The following initializes usage of Bioc devel


For older versions of R, please refer to the appropriate Bioconductor release.


To view documentation for the version of this package installed in your system, start R and enter:

Inroduction to lisaClust HTML R Script
Reference Manual PDF


biocViews CellBasedAssays, SingleCell, Software, Spatial
Version 1.13.1
In Bioconductor since BioC 3.13 (R-4.1) (3 years)
License GPL (>=2)
Depends R (>= 4.0)
Imports ggplot2, class, concaveman, grid, BiocParallel, spatstat.explore, spatstat.geom, BiocGenerics, S4Vectors, methods, spicyR, purrr, stats, data.table, dplyr, tidyr, SingleCellExperiment, SpatialExperiment, SummarizedExperiment, pheatmap, spatstat.random
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Follow Installation instructions to use this package in your R session.

Source Package lisaClust_1.13.1.tar.gz
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macOS Binary (x86_64) lisaClust_1.13.1.tgz
macOS Binary (arm64) lisaClust_1.13.1.tgz
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