Bio.RNAlienData

Description

Synopsis

• data StaticOptions = StaticOptions {
  • tempDirPath :: String
  • sessionID :: String
  • nSCICutoff :: Double
  • userTaxId :: Maybe Int
  • singleHitperTaxToggle :: Bool
  • lengthFilterToggle :: Bool
  • coverageFilterToggle :: Bool
  • cpuThreads :: Int
  • blastDatabase :: Maybe String
  • taxRestriction :: Maybe String
  • verbositySwitch :: Bool
  }
• data ModelConstruction = ModelConstruction {
  • iterationNumber :: Int
  • inputFasta :: Sequence
  • taxRecords :: [TaxonomyRecord]
  • upperTaxonomyLimit :: Maybe Int
  • taxonomicContext :: Maybe Taxon
  • evalueThreshold :: Double
  • alignmentModeInfernal :: Bool
  • selectedQueries :: [String]
  • potentialMembers :: [SearchResult]
  }
• data TaxonomyRecord = TaxonomyRecord {
  • recordTaxonomyId :: Int
  • sequenceRecords :: [SequenceRecord]
  }
• data SequenceRecord = SequenceRecord {
  • nucleotideSequence :: Sequence
  • aligned :: Int
  • recordDescription :: String
  • sequenceOrigin :: Char
  }
• data CMsearch = CMsearch {
  • queryCMfile :: String
  • targetSequenceDatabase :: String
  • numberOfWorkerThreads :: String
  • cmsearchHits :: [CMsearchHit]
  }
• data CMsearchHit = CMsearchHit {
  • hitRank :: Int
  • hitSignificance :: Char
  • hitEvalue :: Double
  • hitScore :: Double
  • hitBias :: Double
  • hitSequenceHeader :: ByteString
  • hitStart :: Int
  • hitEnd :: Int
  • hitStrand :: Char
  • hitModel :: ByteString
  • hitTruncation :: ByteString
  • hitGCContent :: Double
  • hitDescription :: ByteString
  }
• data SearchResult = SearchResult {
  • candidates :: [(Sequence, Int, String, Char)]
  • blastDatabaseSize :: Maybe Double
  }
• data CMstat = CMstat {
  • statIndex :: Int
  • statName :: String
  • statAccession :: String
  • statSequenceNumber :: Int
  • statEffectiveSequences :: Double
  • statConsensusLength :: Int
  • statW :: Int
  • statBasepairs :: Int
  • statBifurcations :: Int
  • statModel :: String
  • relativeEntropyCM :: Double
  • relativeEntropyHMM :: Double
  }

Documentation