Hi everyone I have created 12 pairs of DGE for my 3x2 design matrix with deseq2 and 10/12 shrinking by ashr works fine however,for 2 of the pairs, this message appears
Optimization failed to converge. Results may be unreliable. Try increasing maxiter and rerunning.
I saw error in a thread here https://github.com/stephens999/ashr/issues/76 Does installing mixsqp to resolve this issue? Am I missing anything else?
ok thanks for point it out