Does anyone have experience on Epitope prediction (both T & B cell)? What is your recommendation?

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Anastas Dimitrov Pashov

Definitely - IEDB among those in the public domain. Use it creatively. For instance in class II epitope prediction IEDB recommended is good but it is a constantly developing tool, e.g. now it seems that for DRB1*0101 and DRB1*1101 NetMHCIIpan method is optimal.

Pooja Deshpande

I second that NetMHCII can be good as well. depends what your interest is class I or classII. ClassII predictions are developing and are at times difficult to predict .