Safe Haskell	Safe-Inferred
Language	Haskell2010

Bio.Sequence.Basecalled.Type

Documentation

newtype BasecalledSequence Source #

Constructors

BasecalledSequence (WeightedSequence Double Char)

Instances

Instances details

Show BasecalledSequence Source #
Instance details Defined in Bio.Sequence.Basecalled.Type Methods showsPrec :: Int -> BasecalledSequence -> ShowS # show :: BasecalledSequence -> String # showList :: [BasecalledSequence] -> ShowS #
Cleanable BasecalledSequence Source #
Instance details Defined in Bio.ABI.Clean Methods clean :: BasecalledSequence -> Maybe BasecalledSequence Source # cleanWith :: Thresholds -> BasecalledSequence -> Maybe BasecalledSequence Source #
IsSequence BasecalledSequence Source #
Instance details Defined in Bio.Sequence.Basecalled.Type Associated Types type Element BasecalledSequence Source # type Marking BasecalledSequence Source # type Weight BasecalledSequence Source # Methods toSequence :: BasecalledSequence -> Sequence (Marking BasecalledSequence) (Weight BasecalledSequence) (Element BasecalledSequence) Source # fromSequence :: Sequence (Marking BasecalledSequence) (Weight BasecalledSequence) (Element BasecalledSequence) -> BasecalledSequence Source #
Eq BasecalledSequence Source #
Instance details Defined in Bio.Sequence.Basecalled.Type Methods (==) :: BasecalledSequence -> BasecalledSequence -> Bool # (/=) :: BasecalledSequence -> BasecalledSequence -> Bool #
SequenceDecodable ByteString BasecalledSequence Source #	Converts `ByteString` (that should be content of ABI file) into `BasecalledSequence`.
Instance details Defined in Bio.ABI.Decode Methods sequenceDecode :: ByteString -> Either Text BasecalledSequence Source #
SequenceDecodable ByteString BasecalledSequence Source #	Converts `ByteString` (that should be content of ABI file) into `BasecalledSequence`.
Instance details Defined in Bio.ABI.Decode Methods sequenceDecode :: ByteString -> Either Text BasecalledSequence Source #
SequenceDecodable BasecalledSequenceWithRawData BasecalledSequence Source #	Discards raw data information.
Instance details Defined in Bio.ABI.Decode Methods sequenceDecode :: BasecalledSequenceWithRawData -> Either Text BasecalledSequence Source #
type Element BasecalledSequence Source #
Instance details Defined in Bio.Sequence.Basecalled.Type type Element BasecalledSequence = Char
type Marking BasecalledSequence Source #
Instance details Defined in Bio.Sequence.Basecalled.Type type Marking BasecalledSequence = ()
type Weight BasecalledSequence Source #
Instance details Defined in Bio.Sequence.Basecalled.Type type Weight BasecalledSequence = Double

data BasecalledSequenceWithRawData Source #

Constructors

BasecalledSequenceWithRawData
Fields bsSequence :: BasecalledSequence bsRawG :: Vector Int16 bsRawA :: Vector Int16 bsRawT :: Vector Int16 bsRawC :: Vector Int16 bsPeakLocations :: Vector Int Same length as `bsSequence`. For every base in `bsSequence` corresponding element in `bsPeakLocations` is an index in one of the raw vectors.

Instances

Instances details

Show BasecalledSequenceWithRawData Source #
Instance details Defined in Bio.Sequence.Basecalled.Type Methods showsPrec :: Int -> BasecalledSequenceWithRawData -> ShowS # show :: BasecalledSequenceWithRawData -> String # showList :: [BasecalledSequenceWithRawData] -> ShowS #
Cleanable BasecalledSequenceWithRawData Source #
Instance details Defined in Bio.ABI.Clean Methods clean :: BasecalledSequenceWithRawData -> Maybe BasecalledSequenceWithRawData Source # cleanWith :: Thresholds -> BasecalledSequenceWithRawData -> Maybe BasecalledSequenceWithRawData Source #
Eq BasecalledSequenceWithRawData Source #
Instance details Defined in Bio.Sequence.Basecalled.Type Methods (==) :: BasecalledSequenceWithRawData -> BasecalledSequenceWithRawData -> Bool # (/=) :: BasecalledSequenceWithRawData -> BasecalledSequenceWithRawData -> Bool #
SequenceDecodable BasecalledSequenceWithRawData BasecalledSequence Source #	Discards raw data information.
Instance details Defined in Bio.ABI.Decode Methods sequenceDecode :: BasecalledSequenceWithRawData -> Either Text BasecalledSequence Source #