Beispiel #1
0
def make_cyjs_network(results, model, stmts):
    path_stmts = get_path_stmts(results, model, stmts)
    path_genes = get_path_genes(path_stmts)
    path_uuids = [list(path.keys()) for path in path_stmts]
    all_path_uuids = []
    for p in path_uuids:
        all_path_uuids += p
    print(json.dumps(path_uuids, indent=1))
    #filtered_stmts = ac.filter_gene_list(stmts, path_genes, 'one')
    filtered_stmts = ac.filter_uuid_list(stmts, all_path_uuids)
    ca = CyJSAssembler(filtered_stmts)
    cm = ca.make_model()
    ca.set_CCLE_context(['SKMEL28_SKIN'])
    ca.save_json('output/korkut_model')
Beispiel #2
0
def make_cyjs_network(results, model, stmts):
    path_stmts = get_path_stmts(results, model, stmts)
    path_genes = get_path_genes(path_stmts)
    # Get UUIDs to use as filter
    path_uuids = [list(path.keys()) for path in path_stmts]
    all_path_uuids = []
    for p in path_uuids:
        all_path_uuids += p
    #filtered_stmts = ac.filter_gene_list(stmts, path_genes, 'one')
    filtered_stmts = ac.filter_uuid_list(stmts, all_path_uuids)
    ac.dump_statements(filtered_stmts, 'output/korkut_cyjs_model.pkl')
    ca = CyJSAssembler(filtered_stmts)
    cm = ca.make_model()
    ca.set_CCLE_context(['SKMEL28_SKIN'])
    ca.save_json('output/korkut_model')