Bio.Sequence.AminoProperties

Encodes a table of amino acid properties. Based on Livingstone & Barton, CABIOS, 9, 745-756, 1993, as seen at: http:www.compbio.dundee.ac.ukuserws-dev1jalviewlatesthelphtmlmiscaaproperties.html NB: based on the graphic, not the table (in which P is polar, but T is not) |

Documentation

type AAProp = Amino -> Bool

aromatic :: AAProp

hydrophobic :: AAProp

polar :: AAProp

small :: AAProp

tiny :: AAProp

charged :: AAProp

negative :: AAProp

positive :: AAProp

aliphatic :: AAProp

hydropathy :: Amino -> Double

mass :: Amino -> Double

strandP :: Amino -> Double

The propensities for forming secondary structures From Zvelebil and Baum: Understanding Bioinformatics, Chapter 11 citing Chou and Fasman. Today, more complex methods like GOR are recommended instead.

helixP :: Amino -> Double