Bio.RNAzData

This module contains a hierarchical data structure for RNAz output For more information on RNAz consult: http://www.tbi.univie.ac.at/~wash/RNAz/

Documentation

data RNAz

All elements of RNAz output are contained in this datatype

Constructors

RNAz

Fields

• version :: String
• sequenceNumber :: Int
• columnNumber :: Int
• readingDirection :: String
• meanPairwiseIdentity :: Double
• shannonEntropy :: Double
• gcContent :: Double
• meanSingleSequenceMinimumFreeEnergy :: Double
• consensusMinimumFreeEnergy :: Double
• energyContribution :: Double
• covarianceContribution :: Double
• combinationsPair :: Double
• meanZScore :: Double
• structureConservationIndex :: Double
• backgroundModel :: String
• decisionModel :: String
• svmDecisionValue :: Double
• svmRNAClassProbability :: Double
• prediction :: String
• rnazResults :: [RNAzResult]
• rnazConsensus :: RNAzConsensus

Instances

Eq RNAz

Methods

(==) :: RNAz -> RNAz -> Bool

(/=) :: RNAz -> RNAz -> Bool

Show RNAz

Methods

showsPrec :: Int -> RNAz -> ShowS

show :: RNAz -> String

showList :: [RNAz] -> ShowS

data RNAzResult

Datatype contains all result elements for each member of the input alignment

Constructors

RNAzResult

Fields

• header :: String
• resultSequence :: String
• dotBracket :: String
• minimumFreeEnergy :: Double
• zScore :: Double
• zscoreCalculationApproach :: Char

Instances

Eq RNAzResult

Methods

(==) :: RNAzResult -> RNAzResult -> Bool

(/=) :: RNAzResult -> RNAzResult -> Bool

Show RNAzResult

Methods

showsPrec :: Int -> RNAzResult -> ShowS

show :: RNAzResult -> String

showList :: [RNAzResult] -> ShowS

data RNAzConsensus

Datatype contains all elements for the consenus result of input alignment

Constructors

RNAzConsensus

Fields

• consensusSequence :: String
• consensusDotBracket :: String

Instances

Eq RNAzConsensus

Methods

(==) :: RNAzConsensus -> RNAzConsensus -> Bool

(/=) :: RNAzConsensus -> RNAzConsensus -> Bool

Show RNAzConsensus

Methods

showsPrec :: Int -> RNAzConsensus -> ShowS

show :: RNAzConsensus -> String

showList :: [RNAzConsensus] -> ShowS