Bio.RNAupData

This module contains a data structure for RNAup output For more information on RNAup consult: http://www.tbi.univie.ac.at/RNA/RNAup.html

Documentation

data RNAupInteraction

Data structure for individual interaction between a target and query nucleic acid seqence, contains all (sub)-optimal interactions

Constructors

RNAupInteraction

Fields

• upQueryIdentifier :: String
• upTargetIdentifier :: String
• upInteractions :: [RNAupInteractionRegion]

Instances

Eq RNAupInteraction

Methods

(==) :: RNAupInteraction -> RNAupInteraction -> Bool

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

Show RNAupInteraction

Methods

showsPrec :: Int -> RNAupInteraction -> ShowS

show :: RNAupInteraction -> String

showList :: [RNAupInteraction] -> ShowS

data RNAupInteractionRegion

Data structure for (sub-) optimal interaction region

Constructors

RNAupInteractionRegion

Fields

• upSecondaryStructure :: String
• upQueryDuplexBegin :: Int
• upQueryDuplexEnd :: Int
• upTargetDuplexBegin :: Int
• upTargetDuplexEnd :: Int
• upDuplexEnergy :: Double
• upDuplexEnergyWithoutAccessiblity :: Maybe Double
• upQueryAccessiblity :: Maybe Double
• upTargetAccessibility :: Maybe Double
• upQuerySequence :: String
• upTargetSequence :: String
• upOutputFileName :: Maybe String

Instances

Eq RNAupInteractionRegion

Methods

(==) :: RNAupInteractionRegion -> RNAupInteractionRegion -> Bool

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

Show RNAupInteractionRegion

Methods

showsPrec :: Int -> RNAupInteractionRegion -> ShowS

show :: RNAupInteractionRegion -> String

showList :: [RNAupInteractionRegion] -> ShowS