Man pages for SCpubr
Generate Publication Ready Visualizations of Single Cell Transcriptomics Data
| do_ActivityHeatmap | Compute affinity of gene sets to cell populations using... |
| do_AlluvialPlot | Generate Alluvial plots. |
| do_BarPlot | Create Bar Plots. |
| do_BeeSwarmPlot | BeeSwarm plot. |
| do_BoxPlot | Generate Box Plots. |
| do_CellularStatesPlot | Cellular States plot. |
| doc_function | Mock function used to document all main function. |
| do_ChordDiagramPlot | Generate a Chord diagram. |
| do_CNVHeatmap | Display CNV scores from inferCNV as Feature Plots. |
| do_ColorBlindCheck | Generate colorblind variations of a given color palette. |
| do_ColorPalette | Generate color scales based on a value. |
| do_CorrelationHeatmap | Create correlation matrix heatmaps. |
| do_DimPlot | Wrapper for DimPlot. |
| do_DotPlot | This function is a wrapper for DotPlot. It provides most of... |
| do_EnrichmentHeatmap | Create enrichment scores heatmaps. |
| do_ExpressionHeatmap | Create heatmaps of averaged expression by groups. |
| do_FeaturePlot | Wrapper for FeaturePlot. |
| do_GroupwiseDEHeatmap | Compute a dotplot with the results of a group-wise DE... |
| do_LigandReceptorPlot | Visualize Ligand-Receptor analysis output. |
| do_LoadingsHeatmap | Compute a heatmap summary of the top and bottom genes in the... |
| do_MetadataHeatmap | Compute a heatmap of categorical variables. |
| do_NebulosaPlot | Wrapper for Nebulosa::plot_density in Seurat. |
| do_PackageReport | Generate a status report of SCpubr and its dependencies. |
| do_PathwayActivityHeatmap | Plot Pathway Activities from decoupleR using Progeny prior... |
| do_RankedEnrichmentHeatmap | Compute a heatmap of enrichment of gene sets on the context... |
| do_RankedExpressionHeatmap | Compute a heatmap of expression of genes on the context of a... |
| do_RidgePlot | Create ridge plots. |
| do_SCEnrichmentHeatmap | Perform a single-cell-based heatmap showing the enrichment in... |
| do_SCExpressionHeatmap | Perform a single-cell-based heatmap showing the expression of... |
| do_StripPlot | Generate a Strip plot. |
| do_TermEnrichmentPlot | Display the enriched terms for a given list of genes. |
| do_TFActivityHeatmap | Plot TF Activities from decoupleR using Dorothea prior... |
| do_ViolinPlot | Wrapper for VlnPlot. |
| do_VolcanoPlot | Compute a Volcano plot out of DE genes. |
| do_WafflePlot | Display the enriched terms for a given list of genes. |
| human_chr_locations | Chromosome arm locations for human genome GRCh38. |
| named_list | Named list. |
| named_vector | Named vector. |
