Man pages for AhmedMehdiLab/E.PAGE
Environmental Pathways Affecting Gene Expression
| auto_anno | Generate annotations from data |
| calculate | Calculate overlap statistics |
| calculate_post | Finish calculating overlap statistics |
| calculate_pre | Begin calculating overlap statistics |
| compute | Perform computations on imported and processed data |
| compute_sets | Compute overlap enrichment on E.PATH gene set categories |
| explore_annotation | Find an annotation's associated gene sets and genes |
| import_annotations | Import delimited annotation file into E.PAGE-specific format |
| import_annotations_file | Process tibble of annotation file contents |
| import_database | Import delimited database file into E.PAGE-specific format |
| import_database_file | Process tibble of database file contents |
| import_delim_file | Process tibble of file contents |
| import_delim_path | Read delimited files into tibble |
| plot_overlap | Plot gene-annotation matches as heatmap |
| plot_stats | Plot overlap statistics as a bar graph |
| process_annotations | Process annotations |
| process_database | Process database |
| process_input_seurat | Extract differentially expressed genes from Seurat object |
| process_input_text | Process text input |
| uses | Checks that package can be used, else returns error |
