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bowmanjeffs / paprica

paprica - PAthway PRediction by phylogenetIC plAcement
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Archaea #13

Closed bowmanjeffs closed 8 years ago

bowmanjeffs commented 8 years ago

It isn't possible to jointly align the Archaea and Bacteria, but there's no reason that you can't create two separate databases to facilitate a join analysis. The scores will always be very low in Archaea but this will be interesting in and of itself. This might be as simple as adding and additional user variable "Archaea/Bacteria" to allow the user to specify which database they want to build/use.

bowmanjeffs commented 8 years ago

An ideal solution would have paprica classify the query reads against the bacterial and archaeal cms, and pipe the output to the appropriate database.