API for cparsania/parcutils
Utility Functions To Deal Day To Day Bioinformatics Tasks.
| Global functions | |
|---|---|
| .assign_class_irFinderSdata | Man page |
| .categorize_diff_ase | Man page Source code |
| .categorize_diff_genes | Man page Source code |
| .check_mendate_columns_for_irFinderSdata | Man page |
| .count_data_convert_NA_to_0 | Man page |
| .dsr_to_tibble | Man page Source code |
| .filter_df_by_genes | Man page Source code |
| .filter_gff | Man page Source code |
| .filter_orgdb_by_genetype | Man page Source code |
| .filter_rows_from_count_data | Man page |
| .fix_ASE_diff_rslt_columns | Man page Source code |
| .fix_hm_colors | Man page Source code |
| .generate_a_lineplot | Man page |
| .generate_go_emap_plot | Man page |
| .get_all_expressed_genes | Man page |
| .get_all_named_expression_matrix | Man page Source code |
| .get_count_data | Man page |
| .get_gene_groups_for_fc_scatter_plot | Man page |
| .get_intron_annotations | Man page |
| .get_parcutils_obj_gene_names | Man page |
| .get_parcutils_object_example | Man page |
| .get_replicates_by_sample_list | Man page |
| .get_sample_information | Man page |
| .group_replicates_by_sample | Man page Source code |
| .is_a_list_named | Source code |
| .is_genes_present_in_obj_parcutils | Man page |
| .is_sample_comparsions_present_in_obj_parcutils | Man page |
| .keep_only_enriched_go | Man page |
| .map_granges_metadata | Man page |
| .parallel_import_bw_files | Man page Source code |
| .parcutils_assign_intron_identifier | Man page |
| .perform_kemans_cluster | Man page |
| .piarwise_upset | Man page Source code |
| .prepare_parcutils_ir | Man page |
| .save_de_ir_results | Man page |
| .save_deg_results | Man page |
| .simplify_go | Man page |
| .validate_a_list_of_normalised_matrix | Man page Source code |
| .validate_irfinders_object | Man page |
| .validate_parcutils_ase_obj | Source code |
| .validate_parcutils_chip | Man page Source code |
| .validate_parcutils_ir_object | Man page |
| .validate_parcutils_obj | Man page Source code |
| EnhancedVolcano2 | Man page Source code |
| enrichMsigDB | Man page Source code |
| event_region_to_coordinate | Man page Source code |
| event_region_to_granges | Man page Source code |
| get_ASE_by_regulation | Man page Source code |
| get_ASE_counts_barplot | Man page Source code |
| get_ASE_data_matrix | Man page Source code |
| get_ASEsets_by_regulation | Man page Source code |
| get_ase_data_matrix_heatmap | Man page Source code |
| get_ase_volcano_plot | Man page Source code |
| get_chip_signal_heatmap | Man page Source code |
| get_chip_signal_over_control_heatmap | Man page Source code |
| get_corr_heatbox | Man page Source code |
| get_diff_ASE_count_barplot | Man page Source code |
| get_diff_gene_count_barplot | Man page Source code |
| get_event_annotations | Man page Source code |
| get_five_prime_flank_motif | Man page Source code |
| get_fold_change_heatmap | Man page Source code |
| get_fold_change_line_plot | Man page Source code |
| get_fold_change_matrix | Man page Source code |
| get_fold_change_scatter_plot | Man page Source code |
| get_gene_expression_box_plot | Man page Source code |
| get_gene_expression_heatmap | Man page Source code |
| get_gene_expression_line_plot | Man page Source code |
| get_genes_by_regulation | Man page Source code |
| get_genes_from_event_name | Man page Source code |
| get_genesets_by_regulation | Man page Source code |
| get_go_emap_plot | Man page Source code |
| get_heatmap_data | Man page Source code |
| get_intergenic_signals | Man page Source code |
| get_normalised_expression_matrix | Man page Source code |
| get_pairwise_corr_plot | Man page Source code |
| get_pca_plot | Man page Source code |
| get_rpkm | Man page Source code |
| get_star_align_log_summary | Man page Source code |
| get_star_align_log_summary_plot | Man page Source code |
| get_three_prime_flank_motif | Man page Source code |
| get_tpm | Man page Source code |
| get_upset_intersects | Man page Source code |
| get_volcano_plot | Man page Source code |
| ggsave2 | Man page Source code |
| gseMsigDB | Man page Source code |
| gsea_analysis | Man page Source code |
| import_topn_bed_features | Man page Source code |
| make_enriched_heatmap_list | Man page Source code |
| make_parcutils_chip | Man page Source code |
| named_group_split | Man page Source code |
| normalise_counts | Man page Source code |
| normalised_matrix_to_rpm | Man page Source code |
| parcutils_chip | Man page |
| parcutils_chip-class | Man page |
| plot_chip_pairwise_correlation_heatmap | Man page Source code |
| plot_deASE_venn | Man page Source code |
| plot_deg_upsets | Man page Source code |
| plot_deg_venn | Man page Source code |
| plot_regions_relative_to_reference | Man page Source code |
| print.parcutils | Man page Source code |
| print.parcutils_ase | Man page Source code |
| print.parcutils_ir | Man page Source code |
| run_ase_diff_analysis | Man page Source code |
| run_deseq_analysis | Man page Source code |
| save_go_data | Man page Source code |
| save_go_plots | Man page Source code |
| sort_geom_box | Man page Source code |
