This is the released version of hoodscanR; for the devel version, see hoodscanR.
Spatial cellular neighbourhood scanning in RBioconductor version: Release (3.21)
hoodscanR is an user-friendly R package providing functions to assist cellular neighborhood analysis of any spatial transcriptomics data with single-cell resolution. All functions in the package are built based on the SpatialExperiment object, allowing integration into various spatial transcriptomics-related packages from Bioconductor. The package can result in cell-level neighborhood annotation output, along with funtions to perform neighborhood colocalization analysis and neighborhood-based cell clustering.
Author: Ning Liu [aut, cre] ORCID: 0000-0002-9487-9305 , Jarryd Martin [aut]
Maintainer: Ning Liu <ning.liu at adelaide.edu.au>
Citation (from within R, entercitation("hoodscanR")): Installation
To install this package, start R (version "4.5") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("hoodscanR")
For older versions of R, please refer to the appropriate Bioconductor release.
DocumentationTo view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("hoodscanR")Follow Installation instructions to use this package in your R session.
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