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seems like this hangs somewhat on how well the vendor does their job and how well you do yours. But if everything else is equal it seems to me that the odds are in the vendors favor as they could be doing this in hardware (ok they probably aren’t, but they could).
Then you have to think about how consistant you want stuff to be between vendors in your app. If you handle the compression yourself outside of twain and just ask the vendor for a bmp you should be able to get pretty consistant results where if you always rely on the vendor then your mileage will probably vary – especially when you hit a vendor that doesn’t provide for compression at all…