lisaClust

DOI: 10.18129/B9.bioc.lisaClust    

lisaClust: Clustering of Local Indicators of Spatial Association

Bioconductor version: Release (3.14)

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]

Maintainer: Ellis Patrick <ellis.patrick at sydney.edu.au>

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

Installation

To install this package, start R (version "4.1") and enter:

if (!requireNamespace("BiocManager", quietly = TRUE))
    install.packages("BiocManager")

BiocManager::install("lisaClust")

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

Documentation

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

browseVignettes("lisaClust")

 

HTML R Script Inroduction to lisaClust
PDF   Reference Manual

Details

biocViews CellBasedAssays, SingleCell, Software
Version 1.2.0
In Bioconductor since BioC 3.13 (R-4.1) (0.5 years)
License GPL (>=2)
Depends R (>= 4.1)
Imports ggplot2, class, concaveman, grid, BiocParallel, spatstat.core, spatstat.geom, BiocGenerics, S4Vectors, methods, spicyR, purrr, stats, data.table, dplyr, tidyr
LinkingTo
Suggests BiocStyle, knitr, rmarkdown
SystemRequirements
Enhances
URL
BugReports https://github.com/ellispatrick/lisaClust/issues
Depends On Me
Imports Me
Suggests Me
Links To Me
Build Report  

Package Archives

Follow Installation instructions to use this package in your R session.

Source Package lisaClust_1.2.0.tar.gz
Windows Binary lisaClust_1.2.0.zip
macOS 10.13 (High Sierra) lisaClust_1.2.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/lisaClust
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/lisaClust
Package Short Url https://bioconductor.org/packages/lisaClust/
Package Downloads Report Download Stats
Old Source Packages for BioC 3.14 Source Archive

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