Man pages for rnabioco/scbp
Boilerplate functions for single cell rna-seq analysis
| add_clonotypes | add clonotype information per cell |
| add_features | add features (i.e. rows) to a Seurat object used for... |
| build_cellbrowser | Build cellbrowser |
| calc_da | Calculate differential abundance of cell count labels using... |
| calc_diversity | Calculate cluster sample diversity using Shannon Entropy |
| check_in_metadata | Check if cols in metadata |
| closest_to_point | Get data closest to a point |
| downsample_cells | Downsample seurat object to the same number of cells per... |
| ExportToCellbrowserFast | Export Seurat object for UCSC cell browser optionally uses... |
| get_cell_count_matrix | Get cell counts from seurat object |
| get_clonotypes | get clonotype information per cell |
| get_counts | Get cell counts from seurat object |
| get_example_data | Example data |
| get_metadata | Extract out reduced dimensions and cell metadata to tibble |
| jaccard_index | Compute similarities between vectors |
| jaccard_lists | Compute similarities between lists of character vectors |
| make_cellbrowser | Cell browser wrapper Builds cell browser with better defaults |
| plot_bc | Plot barcode distribution |
| plot_cell_proportions | Plot cell proportions across each sample |
| plot_feature | Plot cells in reduced dimensionality 2D space |
| plot_heatmap | Plot heatmap per cluster/cell-type |
| plot_violins | Make summary violin plots |
| preprocess_alevin | Preprocessing for Alevin output |
| preprocess_bus | Preprocessing for Bustools output |
| sanitize_names | Sanitize cluster names |
| scbp-package | scbp: Boilerplate functions for single cell rna-seq analysis |
| set_shared_orthologs | Compare two seurat objects from different species and return... |
| write_avg_expr | Write average expression matrix to a file |
| write_markers_xlsx | Write marker table to excel for easier perusal by... |
