Biobase.Primary.IUPAC

Degenerate base symbol representation. We use the same conventions as in which ignores Uracil, except if it stands alone. Therefore, any RNA sequence should be converted to DNA (and back afterwards).

NOTE that the generic Char instance is not optimized for speed.

TODO this should be easier once we have instances for RNA,DNA, etc

Documentation

class Degenerate x where

Methods

fromSymbol :: x -> [x]

toSymbol :: [x] -> Maybe x

Instances

Degenerate Char

Raw embeddings

iupacList :: [(Char, String)]

list of characters

iupacNucleotides :: ByteString

Raw iupac data, embedded into the library.