Spatially Aware Cell-Cell Interaction Analysis

Provides tools for analyzing spatial cell-cell interactions based on ligand-receptor pairs, including functions for local, regional, and global analysis using spatial transcriptomics data. Integrates with databases like 'CellChat' < https://github.com/jinworks/CellChat>, 'CellPhoneDB' < https://www.cellphonedb.org/>, 'Cellinker' < https://www.rna-society.org/cellinker/>, 'ICELLNET' < https://github.com/soumelis-lab/ICELLNET>, and 'ConnectomeDB' < https://humanconnectome.org/software/connectomedb/> to identify ligand-receptor pairs, visualize interactions through heatmaps, chord diagrams, and infer interactions on different spatial scales.


Reference manual

It appears you don't have a PDF plugin for this browser. You can click here to download the reference manual.

install.packages("SpaCCI")

1.0.5 by Li-Ting Ku, 8 months ago


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


Authors: Li-Ting Ku [aut, cre]


Documentation:   PDF Manual  


GPL (>= 2) license


Imports Rcpp, Seurat, nnls, ggrepel, pheatmap, circlize, Matrix, dplyr, patchwork, grDevices, reshape2, graphics, ggplot2, FNN, rlang

Linking to Rcpp, RcppArmadillo


See at CRAN