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new chip related functions
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cparsania committed Apr 19, 2024
1 parent 39ae6b4 commit 804e12c
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Showing 19 changed files with 1,495 additions and 0 deletions.
8 changes: 8 additions & 0 deletions NAMESPACE
Original file line number Diff line number Diff line change
Expand Up @@ -27,13 +27,15 @@ export(.is_genes_present_in_obj_parcutils)
export(.is_sample_comparsions_present_in_obj_parcutils)
export(.keep_only_enriched_go)
export(.map_granges_metadata)
export(.parallel_import_bw_files)
export(.parcutils_assign_intron_identifier)
export(.perform_kemans_cluster)
export(.piarwise_upset)
export(.prepare_parcutils_ir)
export(.save_de_ir_results)
export(.save_deg_results)
export(.simplify_go)
export(.validate_a_list_of_normalised_matrix)
export(.validate_irfinders_object)
export(.validate_parcutils_ir_object)
export(.validate_parcutils_obj)
Expand Down Expand Up @@ -76,8 +78,13 @@ export(get_upset_intersects)
export(get_volcano_plot)
export(ggsave2)
export(gsea_analysis)
export(import_topn_bed_features)
export(make_enriched_heatmap_list)
export(make_parcutils_chip)
export(named_group_split)
export(normalise_counts)
export(normalised_matrix_to_rpm)
export(parcutils_chip)
export(plot_deASE_venn)
export(plot_deg_upsets)
export(plot_deg_venn)
Expand All @@ -90,6 +97,7 @@ export(run_deseq_analysis)
export(save_go_data)
export(save_go_plots)
export(sort_geom_box)
exportClasses(parcutils_chip)
import(ComplexHeatmap)
import(DESeq2)
import(EnrichedHeatmap)
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