InterCellar is implemented as an R/Bioconductor Package containing a Shiny app that allows users to interactively analyze cell-cell communication from scRNA-seq data. Starting from precomputed ligand-receptor interactions, InterCellar provides filtering options, annotations and multiple visualizations to explore clusters, genes and functions. Finally, based on functional annotation from Gene Ontology and pathway databases, InterCellar implements data-driven analyses to investigate cell-cell comm
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See how to installReview the instructions the agent will receive before you install.
Launch the interactive Shiny application to analyze cell-cell communication from precomputed ligand-receptor interactions.
library(InterCellar)
InterCellar::run_app(reproducible = TRUE)
Input: Precomputed ligand-receptor interaction tables (e.g., from CellPhoneDB, CellChat, ICELLNET, or SingleCellSignalR). Output: Interactive Shiny interface in a web browser for filtering, annotation, and visualization.
graphite or biomaRt).CellChat, CellPhoneDB, or SingleCellSignalR instead.CellChat or scran directly in R.TRUE): Flag in run_app() to ensure results are reproducible across R sessions.reproducible = TRUE to ensure analysis consistency across sessions.http://127.0.0.1:6134) shown in the R console.CellChat for R-based mechanistic modeling and comparison of cell-cell communication.SingleCellSignalR for simple ligand-receptor interaction predictions and network construction.scater / scran for general single-cell RNA-seq preprocessing and clustering.No reviews yet. Tell others what you thought.
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