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 gene-names (symbol-ensembl). |
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 and bulk gene list |
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 Matrix |
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 |