MFE and structure estimates for mir switches

Nando, is there a way for us to get these in a batch?  Either via the Eterna database API or an Eternascript?

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Hi Omei, at the moment, the answer is simply ‘no’. There are no structures associated with lab designs in the database. As for EternaScript, the Flash-exported APIs for co-folding are in development, and no javascript port that I know of have these.

I’m not too sure what you call a “structure estimate”, but for MFE, I would say that batch processing is currently best done with command line RNAcofold

Tx Nando.  RNAcofold is actually a good answer for me.