|as_annotation_list||Convert an annotation data.frame to a named list, where the...|
|coexpression_enrichment||Calculate a Z score for enrichment for coexpression|
|filter_breadth||Filter very broad or very specific GO terms from a GOA file.|
|filter_roots||Filter GO terms from a particular ontological category (BP,...|
|network_coexpression||Calculate coexpression of network nodes|
|network_shared_annotations||Calculate shared annotations between network nodes|
|read_gaf||Read a GAF file|
|read_gpa||Read a GPA file|
|shared_annotation_enrichment||Calculate a Z score for enrichment for shared annotations|
|shared_annotations||Construct a matrix of shared annotation counts|
|shared_pairwise_annotations||Construct a matrix of shared pairwise annotation counts|
|to_adjacency_matrix||Convert a data frame to an adjacency matrix|
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