SpaCCI: 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' <http://www.cellchat.org/>, '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.
Version: |
1.0 |
Depends: |
R (≥ 3.5.0) |
Imports: |
Rcpp (≥ 1.0.13), Seurat (≥ 4.0.0), nnls, ggrepel, pheatmap, circlize (≥ 0.4.12), Matrix, dplyr, patchwork, grDevices, reshape2, graphics, ggplot2 |
LinkingTo: |
Rcpp, RcppArmadillo |
Published: |
2024-09-30 |
DOI: |
10.32614/CRAN.package.SpaCCI |
Author: |
Li-Ting Ku [aut, cre] |
Maintainer: |
Li-Ting Ku <lku at mdanderson.org> |
License: |
GPL-2 | GPL-3 [expanded from: GPL (≥ 2)] |
NeedsCompilation: |
yes |
CRAN checks: |
SpaCCI results |
Documentation:
Downloads:
Linking:
Please use the canonical form
https://CRAN.R-project.org/package=SpaCCI
to link to this page.