This is the development version of scider; for the stable release version, see scider.
Spatial cell-type inter-correlation by density in RBioconductor version: Development (3.22)
scider is a user-friendly R package providing functions to model the global density of cells in a slide of spatial transcriptomics data. All functions in the package are built based on the SpatialExperiment object, allowing integration into various spatial transcriptomics-related packages from Bioconductor. After modelling density, the package allows for serveral downstream analysis, including colocalization analysis, boundary detection analysis and differential density analysis.
Author: Ning Liu [aut] ORCID: 0000-0002-9487-9305 , Mengbo Li [aut] ORCID: 0000-0002-9666-5810 , Yunshun Chen [aut, cre] ORCID: 0000-0003-4911-5653
Maintainer: Yunshun Chen <yuchen at wehi.edu.au>
Citation (from within R, entercitation("scider")): Installation
To install this package, start R (version "4.5") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
# The following initializes usage of Bioc devel
BiocManager::install(version='devel')
BiocManager::install("scider")
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("scider")Follow Installation instructions to use this package in your R session.
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