Dear Patrick,
I am always using Mother with great joy since the introduction of Dothur.
I would like to suggest to add the following extra feature to the subsample.seq command.
I usually supsample to somewhat around 50,000 reads per samples and afterwards I add any other samples back between 10,000 and 50,000 reads per samples. This always involves some additional steps.
So, it would be fantastic if you could add a parameter to the subsample command which allows to subsample to a range of numbers. Example I would like 50,000 reads per sample and also leave all other samples in, which as a user defined smaller number e.g., 10,000 reads. That would be really cool. Thank you, Josef