Man pages for saeyslab/muscatWrapper
Wrapper functions around muscat for differential expression analysis of multi-sample multi-condition scRNAseq datasets
| add_empirical_pval_fdr | Add empirical p-values and adjusted p-values to the DE output... |
| fix_frq_df | fix_frq_df |
| get_abundance_info | get_abundance_info |
| get_avg_frac_exprs_abund | get_avg_frac_exprs_abund |
| get_DE_info | get_DE_info |
| get_empirical_pvals | get_empirical_pvals |
| get_expression_info | get_expression_info |
| get_FDR_empirical | Add empirical p-values and adjusted p-values to a subset of... |
| get_FDR_empirical_plots | Get diagnostic plots of the empirical null. |
| get_FDR_empirical_plots_all | Get diagnostic plots of the empirical null. |
| get_muscat_exprs_avg | get_muscat_exprs_avg |
| get_muscat_exprs_frac | get_muscat_exprs_frac |
| get_pseudobulk_logCPM_exprs | get_pseudobulk_logCPM_exprs |
| make_DEgene_dotplot_pseudobulk | make_DEgene_dotplot_pseudobulk |
| make_DEgene_dotplot_pseudobulk_covariate | make_DEgene_dotplot_pseudobulk_covariate |
| make_DEgene_dotplot_pseudobulk_reversed | make_DEgene_dotplot_pseudobulk_reversed |
| make_DEgene_violin_plot | make_DEgene_violin_plot |
| muscat_analysis | muscat_analysis |
| p.adjust_empirical | Get empirical p-values and adjusted p-values. |
| perform_muscat_de_analysis | perform_muscat_de_analysis |
| sce | SingleCellExperiment object containing scRNAseq data... |
