Files in sqjin/CellChat
Inference and analysis of cell-cell communication from single-cell and spatial transcriptomics data
.gitattributes
CellChat.Rproj
CellChat_Logo.png
DESCRIPTION
LICENSE
NAMESPACE
NEWS.md
R/CellChat-package.R
R/CellChat_class.R
R/RcppExports.R
R/analysis.R
R/data.R
R/database.R
R/modeling.R
R/utilities.R
R/visualization.R
README.md
data/CellChatDB.human.rda
data/CellChatDB.mouse.rda
data/CellChatDB.zebrafish.rda
data/PPI.human.rda
data/PPI.mouse.rda
man/AnyMatrix-class.Rd
man/CellChat-class.Rd
man/CellChatDB.human.Rd
man/CellChatDB.mouse.Rd
man/CellChatDB.zebrafish.Rd
man/CellChat_theme_opts.Rd
man/PPI.human.Rd
man/PPI.mouse.Rd
man/StackedVlnPlot.Rd
man/addMeta.Rd
man/aggregateNet.Rd
man/alpha_centrality.Rd
man/barPlot.Rd
man/barplot_internal.Rd
man/buildSNN.Rd
man/checkGeneSymbol.Rd
man/colorRamp3.Rd
man/compareInteractions.Rd
man/computeAveExpr.Rd
man/computeCentralityLocal.Rd
man/computeCommunProb.Rd
man/computeCommunProbPathway.Rd
man/computeEigengap.Rd
man/computeEnrichmentScore.Rd
man/computeExprGroup_agonist.Rd
man/computeExprGroup_antagonist.Rd
man/computeExpr_LR.Rd
man/computeExpr_agonist.Rd
man/computeExpr_antagonist.Rd
man/computeExpr_complex.Rd
man/computeExpr_coreceptor.Rd
man/computeLaplacian.Rd
man/computeNetD_structure.Rd
man/computeNetSimilarity.Rd
man/computeNetSimilarityPairwise.Rd
man/computeRegionDistance.Rd
man/createCellChat.Rd
man/dotPlot.Rd
man/entropia.Rd
man/extractEnrichedLR.Rd
man/extractEnrichedLR_internal.Rd
man/extractGene.Rd
man/extractGeneSubset.Rd
man/extractGeneSubsetFromPair.Rd
man/extract_max.Rd
man/filterCommunication.Rd
man/geometricMean.Rd
man/getMaxWeight.Rd
man/ggPalette.Rd
man/identifyCommunicationPatterns.Rd
man/identifyEnrichedInteractions.Rd
man/identifyOverExpressedGenes.Rd
man/identifyOverExpressedInteractions.Rd
man/identifyOverExpressedLigandReceptor.Rd
man/l1NormalizeColumns.Rd
man/l1NormalizeRows.Rd
man/liftCellChat.Rd
man/mergeCellChat.Rd
man/mergeInteractions.Rd
man/modify_vlnplot.Rd
man/mycircle.Rd
man/netAnalysis_computeCentrality.Rd
man/netAnalysis_contribution.Rd
man/netAnalysis_diff_signalingRole_scatter.Rd
man/netAnalysis_dot.Rd
man/netAnalysis_river.Rd
man/netAnalysis_signalingChanges_scatter.Rd
man/netAnalysis_signalingRole_heatmap.Rd
man/netAnalysis_signalingRole_network.Rd
man/netAnalysis_signalingRole_scatter.Rd
man/netClustering.Rd
man/netEmbedding.Rd
man/netMappingDEG.Rd
man/netVisual.Rd
man/netVisual_aggregate.Rd
man/netVisual_barplot.Rd
man/netVisual_bubble.Rd
man/netVisual_chord_cell.Rd
man/netVisual_chord_cell_internal.Rd
man/netVisual_chord_gene.Rd
man/netVisual_circle.Rd
man/netVisual_diffInteraction.Rd
man/netVisual_embedding.Rd
man/netVisual_embeddingPairwise.Rd
man/netVisual_embeddingPairwiseZoomIn.Rd
man/netVisual_embeddingZoomIn.Rd
man/netVisual_heatmap.Rd
man/netVisual_hierarchy1.Rd
man/netVisual_hierarchy2.Rd
man/netVisual_individual.Rd
man/netVisual_spatial.Rd
man/nnd.Rd
man/node_distance.Rd
man/normalizeData.Rd
man/pieChart.Rd
man/plotGeneExpression.Rd
man/projectAndRecombine.Rd
man/projectData.Rd
man/projectFromNetworkRecombine.Rd
man/projectOnNetwork.Rd
man/randomWalkBySolve.Rd
man/rankNet.Rd
man/rankNetPairwise.Rd
man/rankSimilarity.Rd
man/runPCA.Rd
man/runUMAP.Rd
man/scPalette.Rd
man/scaleData.Rd
man/scaleMat.Rd
man/searchPair.Rd
man/selectK.Rd
man/setIdent.Rd
man/show-CellChat-method.Rd
man/showDatabaseCategory.Rd
man/sketchData.Rd
man/spatialDimPlot.Rd
man/spatialFeaturePlot.Rd
man/subsetCellChat.Rd
man/subsetCommunication.Rd
man/subsetCommunication_internal.Rd
man/subsetDB.Rd
man/subsetData.Rd
man/thresholdedMean.Rd
man/triMean.Rd
man/updateCellChat.Rd
man/updateClusterLabels.Rd
overview_CellChat.png
src/CellChat.so
src/CellChat_Rcpp.cpp
src/CellChat_Rcpp.o
src/RcppExports.cpp
src/RcppExports.o
tutorial/CellChat-vignette.Rmd
tutorial/CellChat-vignette.html
tutorial/CellChat_analysis_of_spatial_imaging_data.Rmd
tutorial/CellChat_analysis_of_spatial_imaging_data.html
tutorial/Comparison_analysis_of_multiple_datasets.Rmd
tutorial/Comparison_analysis_of_multiple_datasets.html
tutorial/Comparison_analysis_of_multiple_datasets_with_different_cellular_compositions.Rmd
tutorial/Comparison_analysis_of_multiple_datasets_with_different_cellular_compositions.html
tutorial/Interface_with_other_single-cell_analysis_toolkits.Rmd
tutorial/Interface_with_other_single-cell_analysis_toolkits.html
tutorial/Update-CellChatDB.Rmd
tutorial/Update-CellChatDB.html
