Man pages for scMappR
Single Cell Mapper
| cellmarker_enrich | Fisher's Exact Cell-Type Identification. |
| coEnrich | Identify co-expressed cell-types |
| compare_deconvolution_methods | compare_deconvolution_methods |
| cwFoldChange_evaluate | Measure cell-type specificity of cell-weighted Fold-changes |
| DeconRNAseq_CRAN | DeconRNASeq CRAN compatible |
| deconvolute_and_contextualize | Generate cell weighted Fold-Changes (cwFold-changes) |
| extract_genes_cell | Extract Markers |
| generes_to_heatmap | Generate signature matrix |
| get_gene_symbol | Internal - get gene symbol from Panglao.db assigned... |
| get_signature_matrices | Get signature matrices. |
| gmt | gmt_example |
| gProfiler_cellWeighted_Foldchange | Pathway enrichment for cwFold-changes |
| gsva_cellIdentify | Cell-type naming with GSVA |
| heatmap_generation | Generate Heatmap |
| human_mouse_ct_marker_enrich | Consensus cell-type naming (Fisher's Exact) |
| make_TF_barplot | Plot g:profileR Barplot (TF) |
| pathway_enrich_internal | Internal - Pathway enrichment for cellWeighted_Foldchanges... |
| PBMC_example | PBMC_scMappR |
| plotBP | Plot gProfileR Barplot |
| POA_example | Preoptic_Area |
| process_dgTMatrix_lists | Count Matrix To Signature Matrix |
| process_from_count | Count Matrix To Seurat Object |
| scMappR_and_pathway_analysis | Generate cellWeighted_Foldchanges, visualize, and enrich. |
| scMappR_tissues | scMappR_tissues |
| seurat_to_generes | Identify all cell-type markers |
| single_gene_preferences | Single cell-type gene preferences |
| sm | single_cell_process |
| tissue_by_celltype_enrichment | tissue_by_celltype_enrichment |
| tissue_scMappR_custom | Gene List Visualization and Enrichment with Custom Signature... |
| tissue_scMappR_internal | Gene List Visualization and Enrichment (Internal) |
| tochr | To Character. |
| toNum | To Numeric. |
| topgenes_extract | Extract Top Markers |
| two_method_pathway_enrichment | two_method_pathway_enrichment |
