Banksy
This package is for version 3.21 of Bioconductor; for the stable, up-to-date release version, see Banksy.
Spatial transcriptomic clustering
Bioconductor version: 3.21
Banksy is an R package that incorporates spatial information to cluster cells in a feature space (e.g. gene expression). To incorporate spatial information, BANKSY computes the mean neighborhood expression and azimuthal Gabor filters that capture gene expression gradients. These features are combined with the cell's own expression to embed cells in a neighbor-augmented product space which can then be clustered, allowing for accurate and spatially-aware cell typing and tissue domain segmentation.
Author: Vipul Singhal [aut], Joseph Lee [aut, cre] ORCID iD ORCID: 0000-0002-4983-4714
Maintainer: Joseph Lee <joseph.lee at u.nus.edu>
citation("Banksy")):
Installation
To install this package, start R (version "4.5") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("Banksy")
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("Banksy")
Details
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Package Archives
Follow Installation instructions to use this package in your R session.