@@ -15,7 +15,6 @@ export(deseqresult2df)
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export(distill_enrichment)
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export(enhance_table)
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export(enrichment_map)
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- export(enrichment_map_static)
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export(export_for_iSEE)
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export(export_to_sif)
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export(gene_plot)
@@ -46,6 +45,7 @@ export(happy_hour)
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export(map2color)
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export(overlap_coefficient)
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export(overlap_jaccard_index)
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+ export(plot_emap_static)
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export(shake_davidResult)
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export(shake_enrichResult)
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export(shake_enrichrResult)
@@ -66,6 +66,7 @@ importFrom(AnnotationDbi,Ontology)
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importFrom(AnnotationDbi,Secondary)
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importFrom(AnnotationDbi,Synonym)
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importFrom(AnnotationDbi,Term)
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+ importFrom(BioNAR,layoutByCluster)
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importFrom(ComplexHeatmap,Heatmap)
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importFrom(ComplexHeatmap,HeatmapAnnotation)
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importFrom(ComplexHeatmap,draw)
@@ -122,7 +123,9 @@ importFrom(dplyr,select)
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importFrom(dplyr,slice)
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importFrom(dynamicTreeCut,cutreeDynamic)
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importFrom(expm,"%^%")
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+ importFrom(ggforce,geom_mark_hull)
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importFrom(ggforce,geom_sina)
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+ importFrom(ggraph,ggraph)
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importFrom(ggrepel,geom_label_repel)
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importFrom(ggrepel,geom_text_repel)
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importFrom(ggridges,geom_density_ridges)
@@ -142,15 +145,23 @@ importFrom(igraph,add_edges)
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importFrom(igraph,as_adjacency_matrix)
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importFrom(igraph,as_biadjacency_matrix)
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importFrom(igraph,as_edgelist)
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+ importFrom(igraph,cluster_louvain)
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+ importFrom(igraph,cluster_walktrap)
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importFrom(igraph,degree)
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importFrom(igraph,delete_edges)
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importFrom(igraph,delete_vertices)
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+ importFrom(igraph,edge_attr_names)
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importFrom(igraph,graph_from_data_frame)
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+ importFrom(igraph,groups)
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importFrom(igraph,induced_subgraph)
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+ importFrom(igraph,layout_with_kk)
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importFrom(igraph,make_full_graph)
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+ importFrom(igraph,membership)
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importFrom(igraph,permute)
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+ importFrom(igraph,sizes)
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importFrom(igraph,strength)
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importFrom(igraph,vcount)
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+ importFrom(igraph,vertex_attr_names)
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importFrom(matrixStats,rowSds)
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importFrom(methods,is)
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importFrom(mosdef,create_link_GO)
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