Hi, the following seems suspicious to me:

sage: M = matrix(2,[1,3,2,0])
sage: G = DiGraph(M, loops=True, multiedges=True)
sage: H = DiGraph(M.transpose(), loops=True, multiedges=True)
sage: G.is_isomorphic(H)
True

Strangely enough, this works fine:

sage: M = matrix(2,[1,3,1,0])
sage: G = DiGraph(M, loops=True, multiedges=True)
sage: H = DiGraph(M.transpose(), loops=True, multiedges=True)
sage: G.is_isomorphic(H)
False

I guess this should be reported to sage-devel?

Timo

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