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Bio.Sequence.AminoProperties

Description
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) |
Synopsis

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
helixP :: Amino -> Double

Documentation

type AAProp = Amino -> Bool | Source

aromatic :: AAProp | Source

hydrophobic :: AAProp | Source

polar :: AAProp | Source

small :: AAProp | Source

tiny :: AAProp | Source

charged :: AAProp | Source

negative :: AAProp | Source

positive :: AAProp | Source

aliphatic :: AAProp | Source

hydropathy :: Amino -> Double | Source

mass :: Amino -> Double | Source

strandP :: Amino -> Double | Source

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 | Source

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