Spatial Random Effects Clustering of Single Cell Data

Allows for identification of cell sub-populations within tissue samples using Bayesian multivariate mixture models with spatial random effects to account for a wide range of spatial gene expression patterns, as described in Allen et. al, 2021 . Bayesian inference is conducted using efficient Gibbs sampling implemented using 'Rcpp'.


Reference manual

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install.packages("spruce")

0.99.1 by Carter Allen, 5 years ago


Browse source code at https://github.com/cran/spruce


Authors: Carter Allen [aut, cre] , Dongjun Chung [aut]


Documentation:   PDF Manual  


GPL (>= 2) license


Imports Rcpp, mvtnorm, BayesLogit, truncnorm, stats, igraph, MCMCpack, patchwork, tidyr, dplyr, ggplot2, tidyselect, Seurat, rlang

Linking to Rcpp, RcppArmadillo


See at CRAN