Man pages for xmc811/Scillus
Seurat wrapper package enhancing the processing and visualization of single cell data
| add_program_score | Add gene program scores |
| are_colors | Test if a vector of strings are valid colors |
| convert_symbol | Conversion between mouse and human gene symbols |
| exhaust_genes | T cell exhaustion genes |
| filter_scdata | Filter a list of Seurat objects |
| find_diff_genes | Find differential expressed genes between two groups in each... |
| gene_in_data | Test whether a gene waas in the dataset |
| get_measure_data | Obtain the expression data for genes |
| get_top_genes | Get top genes of each cluster |
| load_scfile | Load single cell RNA-seq data from directory or file |
| mm_hs | Mouse Human gene symbol lookup table |
| pathways.hallmark | Hallmark genes |
| plot_all_cluster_go | plot the GO enrichment analysis of all clusters of a dataset |
| plot_cluster_go | plot the GO enrichment analysis of a cluster |
| plot_GSEA | plot the results of GSEA |
| plot_heatmap | Plot the heatmap of single cell dataset |
| plot_measure | Box plot/Violin plot of gene expressions or meta measures |
| plot_measure_dim | Single cell visualization - gene expression levels |
| plot_qc | Plot the QC metrics of an individual biological sample |
| plot_scdata | Single cell visualization - merged and colored by biological... |
| plot_stat | Plot the basic statistics after cell clustering and labeling |
| refactor_seurat | Refactor grouping variables in Seurat object |
| rename_cluster | Rename clusters in Seurat object |
| set_colors | Setup the colors for plotting |
| test_GSEA | GSEA of differential gene expression in each cluster |
| vlookup | Look up corresponding values from a lookup table |
