Biobase.BLAST.Types

Encoding of tabular NCBI BLAST+ output

Documentation

data BlastTabularResult

Constructors

BlastTabularResult

Fields

• blastProgram :: !BlastProgram
• blastQueryId :: !ByteString
• blastDatabase :: !ByteString
• blastHitNumber :: !Int
• hitLines :: !(Vector BlastTabularHit)

Instances

Eq BlastTabularResult

Methods

(==) :: BlastTabularResult -> BlastTabularResult -> Bool

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

Show BlastTabularResult

Methods

showsPrec :: Int -> BlastTabularResult -> ShowS

show :: BlastTabularResult -> String

showList :: [BlastTabularResult] -> ShowS

data BlastProgram

Constructors

BlastX

BlastP

BlastN

Instances

Eq BlastProgram

Methods

(==) :: BlastProgram -> BlastProgram -> Bool

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

Show BlastProgram

Methods

showsPrec :: Int -> BlastProgram -> ShowS

show :: BlastProgram -> String

showList :: [BlastProgram] -> ShowS

data BlastTabularHit

Constructors

BlastTabularHit

Fields

• queryId :: !ByteString
• subjectId :: !ByteString
• seqIdentity :: !Double
• alignmentLength :: !Int
• misMatches :: !Int
• gapOpenScore :: !Int
• queryStart :: !Int
• queryEnd :: !Int
• hitSeqStart :: !Int
• hitSeqEnd :: !Int
• eValue :: !Double
• bitScore :: !Double
• subjectFrame :: !Int
• querySeq :: !ByteString
• subjectSeq :: !ByteString

Instances

Eq BlastTabularHit

Methods

(==) :: BlastTabularHit -> BlastTabularHit -> Bool

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

Show BlastTabularHit

Methods

showsPrec :: Int -> BlastTabularHit -> ShowS

show :: BlastTabularHit -> String

showList :: [BlastTabularHit] -> ShowS