scplotter is an R package that is built upon plotthis. It provides a set of functions to visualize single-cell sequencing data in an easy and efficient way.
remotes::install_github("pwwang/scplotter") # or devtools::install_github("pwwang/scplotter") # or using conda $ conda install pwwang::r-scplotter
ClustreePlot | CellVelocityPlot
CCCPlot (Cell-Cell Communication Plot)
ClonalVolumePlot | ClonalAbundancePlot | ClonalResidencyPlot | ClonalDynamicsPlot | ClonalCompositionPlot | ClonalOverlapPlot | ClonalGeneUsagePlot
ClonalRarefactionPlot | ClonalKmerPlot | ClonalDiversityPlot | ClonalPositionalPlot | ClonalLengthPlot | ClonalStatPlot
provider <- tidyprompt::llm_provider_openai(api_key = Sys.getenv("OPENAI_API_KEY")) chat <- SCPlotterChat$new(provider = provider) chat$ask("Generate a cell-cell communication plot for the cellphonedb_res data.") # Tool identified: CCCPlot # Data object identified: cellphonedb_res # Running tool: CCCPlot
chat$ask("Do a heatmap instead") # Tool identified: CCCPlot # Data object identified: cellphonedb_res # Running tool: CCCPlot
scplotter is built upon the following fantastic packages:
plotthisfor the core plotting functions.tidypromptfor the LLM interface.Seuratfor the Seurat object support.LIANAfor the cell-cell communication analysis.scRepertoirefor the TCR/BCR repertoire analysis.Giottofor the spatial data analysis.