Data.SAM.Version1_6.Header.SQ

WARNING

This module is considered internal.

The Package Versioning Policy does not apply.

The contents of this module may change in any way whatsoever and without any warning between minor versions of this package.

Authors importing this library are expected to track development closely.

All credit goes to the author(s)/maintainer(s) of the containers library for the above warning text.

Description

This library enables the decoding/encoding of SAM, BAM and CRAM file formats.

SAM version 1.6 Reference sequence dictionary data type

data SAM_V1_6_Reference_Sequence_Dictionary

Custom SAM (version 1.6) SAM_V1_6_Reference_Sequence_Dictionary data type. See section 1.3 of the SAM v1.6 specification documentation.

Constructors

SAM_V1_6_Reference_Sequence_Dictionary

Fields

• sam_v1_6_reference_sequence_dictionary_reference_sequence_name :: SAM_V1_6_Reference_Sequence_Dictionary_Reference_Sequence_Name
• sam_v1_6_reference_sequence_dictionary_reference_sequence_length :: SAM_V1_6_Reference_Sequence_Dictionary_Reference_Sequence_Length
• sam_v1_6_reference_sequence_dictionary_reference_alternative_locus :: Maybe SAM_V1_6_Reference_Sequence_Dictionary_Alternative_Locus
• sam_v1_6_reference_sequence_dictionary_reference_alternative_reference_sequence_names :: Maybe SAM_V1_6_Reference_Sequence_Dictionary_Alternative_Reference_Sequence_Names
• sam_v1_6_reference_sequence_dictionary_genome_assembly_identifier :: Maybe SAM_V1_6_Reference_Sequence_Dictionary_Genome_Assembly_Identifier
• sam_v1_6_reference_sequence_dictionary_description :: Maybe SAM_V1_6_Reference_Sequence_Dictionary_Description
• sam_v1_6_reference_sequence_dictionary_md5_checksum :: Maybe SAM_V1_6_Reference_Sequence_Dictionary_MD5_Checksum
• sam_v1_6_reference_sequence_dictionary_species :: Maybe SAM_V1_6_Reference_Sequence_Dictionary_Species
• sam_v1_6_reference_sequence_dictionary_molecule_topology :: Maybe SAM_V1_6_Reference_Sequence_Dictionary_Molecule_Topology
• sam_v1_6_reference_sequence_dictionary_uri :: Maybe SAM_V1_6_Reference_Sequence_Dictionary_URI

Instances

Generic SAM_V1_6_Reference_Sequence_Dictionary

Defined in Data.SAM.Version1_6.Header.SQ

Associated Types

type Rep SAM_V1_6_Reference_Sequence_Dictionary :: Type -> Type

Methods

from :: SAM_V1_6_Reference_Sequence_Dictionary -> Rep SAM_V1_6_Reference_Sequence_Dictionary x

to :: Rep SAM_V1_6_Reference_Sequence_Dictionary x -> SAM_V1_6_Reference_Sequence_Dictionary

type Rep SAM_V1_6_Reference_Sequence_Dictionary

Defined in Data.SAM.Version1_6.Header.SQ

type Rep SAM_V1_6_Reference_Sequence_Dictionary = D1 ('MetaData "SAM_V1_6_Reference_Sequence_Dictionary" "Data.SAM.Version1_6.Header.SQ" "hs-samtools-0.2.0.0-inplace" 'False) (C1 ('MetaCons "SAM_V1_6_Reference_Sequence_Dictionary" 'PrefixI 'True) (((S1 ('MetaSel ('Just "sam_v1_6_reference_sequence_dictionary_reference_sequence_name") 'NoSourceUnpackedness 'NoSourceStrictness 'DecidedLazy) (Rec0 SAM_V1_6_Reference_Sequence_Dictionary_Reference_Sequence_Name) :*: S1 ('MetaSel ('Just "sam_v1_6_reference_sequence_dictionary_reference_sequence_length") 'NoSourceUnpackedness 'NoSourceStrictness 'DecidedLazy) (Rec0 SAM_V1_6_Reference_Sequence_Dictionary_Reference_Sequence_Length)) :*: (S1 ('MetaSel ('Just "sam_v1_6_reference_sequence_dictionary_reference_alternative_locus") 'NoSourceUnpackedness 'NoSourceStrictness 'DecidedLazy) (Rec0 (Maybe SAM_V1_6_Reference_Sequence_Dictionary_Alternative_Locus)) :*: (S1 ('MetaSel ('Just "sam_v1_6_reference_sequence_dictionary_reference_alternative_reference_sequence_names") 'NoSourceUnpackedness 'NoSourceStrictness 'DecidedLazy) (Rec0 (Maybe SAM_V1_6_Reference_Sequence_Dictionary_Alternative_Reference_Sequence_Names)) :*: S1 ('MetaSel ('Just "sam_v1_6_reference_sequence_dictionary_genome_assembly_identifier") 'NoSourceUnpackedness 'NoSourceStrictness 'DecidedLazy) (Rec0 (Maybe SAM_V1_6_Reference_Sequence_Dictionary_Genome_Assembly_Identifier))))) :*: ((S1 ('MetaSel ('Just "sam_v1_6_reference_sequence_dictionary_description") 'NoSourceUnpackedness 'NoSourceStrictness 'DecidedLazy) (Rec0 (Maybe SAM_V1_6_Reference_Sequence_Dictionary_Description)) :*: S1 ('MetaSel ('Just "sam_v1_6_reference_sequence_dictionary_md5_checksum") 'NoSourceUnpackedness 'NoSourceStrictness 'DecidedLazy) (Rec0 (Maybe SAM_V1_6_Reference_Sequence_Dictionary_MD5_Checksum))) :*: (S1 ('MetaSel ('Just "sam_v1_6_reference_sequence_dictionary_species") 'NoSourceUnpackedness 'NoSourceStrictness 'DecidedLazy) (Rec0 (Maybe SAM_V1_6_Reference_Sequence_Dictionary_Species)) :*: (S1 ('MetaSel ('Just "sam_v1_6_reference_sequence_dictionary_molecule_topology") 'NoSourceUnpackedness 'NoSourceStrictness 'DecidedLazy) (Rec0 (Maybe SAM_V1_6_Reference_Sequence_Dictionary_Molecule_Topology)) :*: S1 ('MetaSel ('Just "sam_v1_6_reference_sequence_dictionary_uri") 'NoSourceUnpackedness 'NoSourceStrictness 'DecidedLazy) (Rec0 (Maybe SAM_V1_6_Reference_Sequence_Dictionary_URI)))))))

SAM version 1.6 Reference sequence dictionary data types

data SAM_V1_6_Reference_Sequence_Dictionary_Reference_Sequence_Name

SN tag for SAM_V1_6_Reference_Sequence_Dictionary.

Constructors

SAM_V1_6_Reference_Sequence_Dictionary_Reference_Sequence_Name

Fields

• sam_v1_6_reference_sequence_dictionary_reference_sequence_name_tag :: Seq Word8
• sam_v1_6_reference_sequence_dictionary_reference_sequence_name_value :: ByteString

Instances

Generic SAM_V1_6_Reference_Sequence_Dictionary_Reference_Sequence_Name

Defined in Data.SAM.Version1_6.Header.SQ

Associated Types

type Rep SAM_V1_6_Reference_Sequence_Dictionary_Reference_Sequence_Name :: Type -> Type

Methods

from :: SAM_V1_6_Reference_Sequence_Dictionary_Reference_Sequence_Name -> Rep SAM_V1_6_Reference_Sequence_Dictionary_Reference_Sequence_Name x

to :: Rep SAM_V1_6_Reference_Sequence_Dictionary_Reference_Sequence_Name x -> SAM_V1_6_Reference_Sequence_Dictionary_Reference_Sequence_Name

Show SAM_V1_6_Reference_Sequence_Dictionary_Reference_Sequence_Name

Show instance for SAM_V1_6_Reference_Sequence_Dictionary_Reference_Sequence_Name.

Defined in Data.SAM.Version1_6.Header.SQ

Methods

showsPrec :: Int -> SAM_V1_6_Reference_Sequence_Dictionary_Reference_Sequence_Name -> ShowS

show :: SAM_V1_6_Reference_Sequence_Dictionary_Reference_Sequence_Name -> String

showList :: [SAM_V1_6_Reference_Sequence_Dictionary_Reference_Sequence_Name] -> ShowS

Eq SAM_V1_6_Reference_Sequence_Dictionary_Reference_Sequence_Name

Eq instance for SAM_V1_6_Reference_Sequence_Dictionary_Reference_Sequence_Name.

Defined in Data.SAM.Version1_6.Header.SQ

Methods

(==) :: SAM_V1_6_Reference_Sequence_Dictionary_Reference_Sequence_Name -> SAM_V1_6_Reference_Sequence_Dictionary_Reference_Sequence_Name -> Bool

(/=) :: SAM_V1_6_Reference_Sequence_Dictionary_Reference_Sequence_Name -> SAM_V1_6_Reference_Sequence_Dictionary_Reference_Sequence_Name -> Bool

type Rep SAM_V1_6_Reference_Sequence_Dictionary_Reference_Sequence_Name

Defined in Data.SAM.Version1_6.Header.SQ

type Rep SAM_V1_6_Reference_Sequence_Dictionary_Reference_Sequence_Name = D1 ('MetaData "SAM_V1_6_Reference_Sequence_Dictionary_Reference_Sequence_Name" "Data.SAM.Version1_6.Header.SQ" "hs-samtools-0.2.0.0-inplace" 'False) (C1 ('MetaCons "SAM_V1_6_Reference_Sequence_Dictionary_Reference_Sequence_Name" 'PrefixI 'True) (S1 ('MetaSel ('Just "sam_v1_6_reference_sequence_dictionary_reference_sequence_name_tag") 'NoSourceUnpackedness 'NoSourceStrictness 'DecidedLazy) (Rec0 (Seq Word8)) :*: S1 ('MetaSel ('Just "sam_v1_6_reference_sequence_dictionary_reference_sequence_name_value") 'NoSourceUnpackedness 'NoSourceStrictness 'DecidedLazy) (Rec0 ByteString)))

data SAM_V1_6_Reference_Sequence_Dictionary_Reference_Sequence_Length

LN tag for SAM_V1_6_Reference_Sequence_Dictionary.

Constructors

SAM_V1_6_Reference_Sequence_Dictionary_Reference_Sequence_Length

Fields

• sam_v1_6_reference_sequence_dictionary_reference_sequence_length_tag :: Seq Word8
• sam_v1_6_reference_sequence_dictionary_reference_sequence_length_value :: ByteString

Instances

Generic SAM_V1_6_Reference_Sequence_Dictionary_Reference_Sequence_Length

Defined in Data.SAM.Version1_6.Header.SQ

Associated Types

type Rep SAM_V1_6_Reference_Sequence_Dictionary_Reference_Sequence_Length :: Type -> Type

Methods

from :: SAM_V1_6_Reference_Sequence_Dictionary_Reference_Sequence_Length -> Rep SAM_V1_6_Reference_Sequence_Dictionary_Reference_Sequence_Length x

to :: Rep SAM_V1_6_Reference_Sequence_Dictionary_Reference_Sequence_Length x -> SAM_V1_6_Reference_Sequence_Dictionary_Reference_Sequence_Length

Show SAM_V1_6_Reference_Sequence_Dictionary_Reference_Sequence_Length

Show instance for SAM_V1_6_Reference_Sequence_Dictionary_Reference_Sequence_Length.

Defined in Data.SAM.Version1_6.Header.SQ

Methods

showsPrec :: Int -> SAM_V1_6_Reference_Sequence_Dictionary_Reference_Sequence_Length -> ShowS

show :: SAM_V1_6_Reference_Sequence_Dictionary_Reference_Sequence_Length -> String

showList :: [SAM_V1_6_Reference_Sequence_Dictionary_Reference_Sequence_Length] -> ShowS

Eq SAM_V1_6_Reference_Sequence_Dictionary_Reference_Sequence_Length

Eq instance for SAM_V1_6_Reference_Sequence_Dictionary_Reference_Sequence_Length.

Defined in Data.SAM.Version1_6.Header.SQ

Methods

(==) :: SAM_V1_6_Reference_Sequence_Dictionary_Reference_Sequence_Length -> SAM_V1_6_Reference_Sequence_Dictionary_Reference_Sequence_Length -> Bool

(/=) :: SAM_V1_6_Reference_Sequence_Dictionary_Reference_Sequence_Length -> SAM_V1_6_Reference_Sequence_Dictionary_Reference_Sequence_Length -> Bool

type Rep SAM_V1_6_Reference_Sequence_Dictionary_Reference_Sequence_Length

Defined in Data.SAM.Version1_6.Header.SQ

type Rep SAM_V1_6_Reference_Sequence_Dictionary_Reference_Sequence_Length = D1 ('MetaData "SAM_V1_6_Reference_Sequence_Dictionary_Reference_Sequence_Length" "Data.SAM.Version1_6.Header.SQ" "hs-samtools-0.2.0.0-inplace" 'False) (C1 ('MetaCons "SAM_V1_6_Reference_Sequence_Dictionary_Reference_Sequence_Length" 'PrefixI 'True) (S1 ('MetaSel ('Just "sam_v1_6_reference_sequence_dictionary_reference_sequence_length_tag") 'NoSourceUnpackedness 'NoSourceStrictness 'DecidedLazy) (Rec0 (Seq Word8)) :*: S1 ('MetaSel ('Just "sam_v1_6_reference_sequence_dictionary_reference_sequence_length_value") 'NoSourceUnpackedness 'NoSourceStrictness 'DecidedLazy) (Rec0 ByteString)))

data SAM_V1_6_Reference_Sequence_Dictionary_Alternative_Locus

AH tag for SAM_V1_6_Reference_Sequence_Dictionary.

Constructors

SAM_V1_6_Reference_Sequence_Dictionary_Alternative_Locus

Fields

• sam_v1_6_reference_sequence_dictionary_reference_alternative_locus_tag :: Seq Word8
• sam_v1_6_reference_sequence_dictionary_reference_alternative_locus_value :: ByteString

Instances

Generic SAM_V1_6_Reference_Sequence_Dictionary_Alternative_Locus

Defined in Data.SAM.Version1_6.Header.SQ

Associated Types

type Rep SAM_V1_6_Reference_Sequence_Dictionary_Alternative_Locus :: Type -> Type

Methods

from :: SAM_V1_6_Reference_Sequence_Dictionary_Alternative_Locus -> Rep SAM_V1_6_Reference_Sequence_Dictionary_Alternative_Locus x

to :: Rep SAM_V1_6_Reference_Sequence_Dictionary_Alternative_Locus x -> SAM_V1_6_Reference_Sequence_Dictionary_Alternative_Locus

Show SAM_V1_6_Reference_Sequence_Dictionary_Alternative_Locus

Show instance for SAM_V1_6_Reference_Sequence_Dictionary_Alternative_Locus.

Defined in Data.SAM.Version1_6.Header.SQ

Methods

showsPrec :: Int -> SAM_V1_6_Reference_Sequence_Dictionary_Alternative_Locus -> ShowS

show :: SAM_V1_6_Reference_Sequence_Dictionary_Alternative_Locus -> String

showList :: [SAM_V1_6_Reference_Sequence_Dictionary_Alternative_Locus] -> ShowS

Eq SAM_V1_6_Reference_Sequence_Dictionary_Alternative_Locus

Eq instance for SAM_V1_6_Reference_Sequence_Dictionary_Alternative_Locus.

Defined in Data.SAM.Version1_6.Header.SQ

Methods

(==) :: SAM_V1_6_Reference_Sequence_Dictionary_Alternative_Locus -> SAM_V1_6_Reference_Sequence_Dictionary_Alternative_Locus -> Bool

(/=) :: SAM_V1_6_Reference_Sequence_Dictionary_Alternative_Locus -> SAM_V1_6_Reference_Sequence_Dictionary_Alternative_Locus -> Bool

type Rep SAM_V1_6_Reference_Sequence_Dictionary_Alternative_Locus

Defined in Data.SAM.Version1_6.Header.SQ

type Rep SAM_V1_6_Reference_Sequence_Dictionary_Alternative_Locus = D1 ('MetaData "SAM_V1_6_Reference_Sequence_Dictionary_Alternative_Locus" "Data.SAM.Version1_6.Header.SQ" "hs-samtools-0.2.0.0-inplace" 'False) (C1 ('MetaCons "SAM_V1_6_Reference_Sequence_Dictionary_Alternative_Locus" 'PrefixI 'True) (S1 ('MetaSel ('Just "sam_v1_6_reference_sequence_dictionary_reference_alternative_locus_tag") 'NoSourceUnpackedness 'NoSourceStrictness 'DecidedLazy) (Rec0 (Seq Word8)) :*: S1 ('MetaSel ('Just "sam_v1_6_reference_sequence_dictionary_reference_alternative_locus_value") 'NoSourceUnpackedness 'NoSourceStrictness 'DecidedLazy) (Rec0 ByteString)))

data SAM_V1_6_Reference_Sequence_Dictionary_Alternative_Reference_Sequence_Names

AN tag for SAM_V1_6_Reference_Sequence_Dictionary.

Constructors

SAM_V1_6_Reference_Sequence_Dictionary_Alternative_Reference_Sequence_Names

Fields

• sam_v1_6_reference_sequence_dictionary_reference_alternative_reference_sequence_names_tag :: Seq Word8
• sam_v1_6_reference_sequence_dictionary_reference_alternative_reference_sequence_names_value :: ByteString

Instances

Generic SAM_V1_6_Reference_Sequence_Dictionary_Alternative_Reference_Sequence_Names

Defined in Data.SAM.Version1_6.Header.SQ

Associated Types

type Rep SAM_V1_6_Reference_Sequence_Dictionary_Alternative_Reference_Sequence_Names :: Type -> Type

Methods

from :: SAM_V1_6_Reference_Sequence_Dictionary_Alternative_Reference_Sequence_Names -> Rep SAM_V1_6_Reference_Sequence_Dictionary_Alternative_Reference_Sequence_Names x

to :: Rep SAM_V1_6_Reference_Sequence_Dictionary_Alternative_Reference_Sequence_Names x -> SAM_V1_6_Reference_Sequence_Dictionary_Alternative_Reference_Sequence_Names

Show SAM_V1_6_Reference_Sequence_Dictionary_Alternative_Reference_Sequence_Names

Show instance for SAM_V1_6_Reference_Sequence_Dictionary_Alternative_Reference_Sequence_Names.

Defined in Data.SAM.Version1_6.Header.SQ

Methods

showsPrec :: Int -> SAM_V1_6_Reference_Sequence_Dictionary_Alternative_Reference_Sequence_Names -> ShowS

show :: SAM_V1_6_Reference_Sequence_Dictionary_Alternative_Reference_Sequence_Names -> String

showList :: [SAM_V1_6_Reference_Sequence_Dictionary_Alternative_Reference_Sequence_Names] -> ShowS

Eq SAM_V1_6_Reference_Sequence_Dictionary_Alternative_Reference_Sequence_Names

Eq instance for SAM_V1_6_Reference_Sequence_Dictionary_Alternative_Reference_Sequence_Names.

Defined in Data.SAM.Version1_6.Header.SQ

Methods

(==) :: SAM_V1_6_Reference_Sequence_Dictionary_Alternative_Reference_Sequence_Names -> SAM_V1_6_Reference_Sequence_Dictionary_Alternative_Reference_Sequence_Names -> Bool

(/=) :: SAM_V1_6_Reference_Sequence_Dictionary_Alternative_Reference_Sequence_Names -> SAM_V1_6_Reference_Sequence_Dictionary_Alternative_Reference_Sequence_Names -> Bool

type Rep SAM_V1_6_Reference_Sequence_Dictionary_Alternative_Reference_Sequence_Names

Defined in Data.SAM.Version1_6.Header.SQ

type Rep SAM_V1_6_Reference_Sequence_Dictionary_Alternative_Reference_Sequence_Names = D1 ('MetaData "SAM_V1_6_Reference_Sequence_Dictionary_Alternative_Reference_Sequence_Names" "Data.SAM.Version1_6.Header.SQ" "hs-samtools-0.2.0.0-inplace" 'False) (C1 ('MetaCons "SAM_V1_6_Reference_Sequence_Dictionary_Alternative_Reference_Sequence_Names" 'PrefixI 'True) (S1 ('MetaSel ('Just "sam_v1_6_reference_sequence_dictionary_reference_alternative_reference_sequence_names_tag") 'NoSourceUnpackedness 'NoSourceStrictness 'DecidedLazy) (Rec0 (Seq Word8)) :*: S1 ('MetaSel ('Just "sam_v1_6_reference_sequence_dictionary_reference_alternative_reference_sequence_names_value") 'NoSourceUnpackedness 'NoSourceStrictness 'DecidedLazy) (Rec0 ByteString)))

data SAM_V1_6_Reference_Sequence_Dictionary_Genome_Assembly_Identifier

AS tag for SAM_V1_6_Reference_Sequence_Dictionary.

Constructors

SAM_V1_6_Reference_Sequence_Dictionary_Genome_Assembly_Identifier

Fields

• sam_v1_6_reference_sequence_dictionary_genome_assembly_identifier_tag :: Seq Word8
• sam_v1_6_reference_sequence_dictionary_genome_assembly_identifier_value :: ByteString

Instances

Generic SAM_V1_6_Reference_Sequence_Dictionary_Genome_Assembly_Identifier

Defined in Data.SAM.Version1_6.Header.SQ

Associated Types

type Rep SAM_V1_6_Reference_Sequence_Dictionary_Genome_Assembly_Identifier :: Type -> Type

Methods

from :: SAM_V1_6_Reference_Sequence_Dictionary_Genome_Assembly_Identifier -> Rep SAM_V1_6_Reference_Sequence_Dictionary_Genome_Assembly_Identifier x

to :: Rep SAM_V1_6_Reference_Sequence_Dictionary_Genome_Assembly_Identifier x -> SAM_V1_6_Reference_Sequence_Dictionary_Genome_Assembly_Identifier

Show SAM_V1_6_Reference_Sequence_Dictionary_Genome_Assembly_Identifier

Show instance for SAM_V1_6_Reference_Sequence_Dictionary_Genome_Assembly_Identifier.

Defined in Data.SAM.Version1_6.Header.SQ

Methods

showsPrec :: Int -> SAM_V1_6_Reference_Sequence_Dictionary_Genome_Assembly_Identifier -> ShowS

show :: SAM_V1_6_Reference_Sequence_Dictionary_Genome_Assembly_Identifier -> String

showList :: [SAM_V1_6_Reference_Sequence_Dictionary_Genome_Assembly_Identifier] -> ShowS

Eq SAM_V1_6_Reference_Sequence_Dictionary_Genome_Assembly_Identifier

Eq instance for SAM_V1_6_Reference_Sequence_Dictionary_Genome_Assembly_Identifier.

Defined in Data.SAM.Version1_6.Header.SQ

Methods

(==) :: SAM_V1_6_Reference_Sequence_Dictionary_Genome_Assembly_Identifier -> SAM_V1_6_Reference_Sequence_Dictionary_Genome_Assembly_Identifier -> Bool

(/=) :: SAM_V1_6_Reference_Sequence_Dictionary_Genome_Assembly_Identifier -> SAM_V1_6_Reference_Sequence_Dictionary_Genome_Assembly_Identifier -> Bool

type Rep SAM_V1_6_Reference_Sequence_Dictionary_Genome_Assembly_Identifier

Defined in Data.SAM.Version1_6.Header.SQ

type Rep SAM_V1_6_Reference_Sequence_Dictionary_Genome_Assembly_Identifier = D1 ('MetaData "SAM_V1_6_Reference_Sequence_Dictionary_Genome_Assembly_Identifier" "Data.SAM.Version1_6.Header.SQ" "hs-samtools-0.2.0.0-inplace" 'False) (C1 ('MetaCons "SAM_V1_6_Reference_Sequence_Dictionary_Genome_Assembly_Identifier" 'PrefixI 'True) (S1 ('MetaSel ('Just "sam_v1_6_reference_sequence_dictionary_genome_assembly_identifier_tag") 'NoSourceUnpackedness 'NoSourceStrictness 'DecidedLazy) (Rec0 (Seq Word8)) :*: S1 ('MetaSel ('Just "sam_v1_6_reference_sequence_dictionary_genome_assembly_identifier_value") 'NoSourceUnpackedness 'NoSourceStrictness 'DecidedLazy) (Rec0 ByteString)))

data SAM_V1_6_Reference_Sequence_Dictionary_Description

DS tag for SAM_V1_6_Reference_Sequence_Dictionary.

Constructors

SAM_V1_6_Reference_Sequence_Dictionary_Description

Fields

• sam_v1_6_reference_sequence_dictionary_description_tag :: Seq Word8
• sam_v1_6_reference_sequence_dictionary_description_value :: ByteString

Instances

Generic SAM_V1_6_Reference_Sequence_Dictionary_Description

Defined in Data.SAM.Version1_6.Header.SQ

Associated Types

type Rep SAM_V1_6_Reference_Sequence_Dictionary_Description :: Type -> Type

Methods

from :: SAM_V1_6_Reference_Sequence_Dictionary_Description -> Rep SAM_V1_6_Reference_Sequence_Dictionary_Description x

to :: Rep SAM_V1_6_Reference_Sequence_Dictionary_Description x -> SAM_V1_6_Reference_Sequence_Dictionary_Description

Show SAM_V1_6_Reference_Sequence_Dictionary_Description

Show instance for SAM_V1_6_Reference_Sequence_Dictionary_Description.

Defined in Data.SAM.Version1_6.Header.SQ

Methods

showsPrec :: Int -> SAM_V1_6_Reference_Sequence_Dictionary_Description -> ShowS

show :: SAM_V1_6_Reference_Sequence_Dictionary_Description -> String

showList :: [SAM_V1_6_Reference_Sequence_Dictionary_Description] -> ShowS

Eq SAM_V1_6_Reference_Sequence_Dictionary_Description

Eq instance for SAM_V1_6_Reference_Sequence_Dictionary_Description.

Defined in Data.SAM.Version1_6.Header.SQ

Methods

(==) :: SAM_V1_6_Reference_Sequence_Dictionary_Description -> SAM_V1_6_Reference_Sequence_Dictionary_Description -> Bool

(/=) :: SAM_V1_6_Reference_Sequence_Dictionary_Description -> SAM_V1_6_Reference_Sequence_Dictionary_Description -> Bool

type Rep SAM_V1_6_Reference_Sequence_Dictionary_Description

Defined in Data.SAM.Version1_6.Header.SQ

type Rep SAM_V1_6_Reference_Sequence_Dictionary_Description = D1 ('MetaData "SAM_V1_6_Reference_Sequence_Dictionary_Description" "Data.SAM.Version1_6.Header.SQ" "hs-samtools-0.2.0.0-inplace" 'False) (C1 ('MetaCons "SAM_V1_6_Reference_Sequence_Dictionary_Description" 'PrefixI 'True) (S1 ('MetaSel ('Just "sam_v1_6_reference_sequence_dictionary_description_tag") 'NoSourceUnpackedness 'NoSourceStrictness 'DecidedLazy) (Rec0 (Seq Word8)) :*: S1 ('MetaSel ('Just "sam_v1_6_reference_sequence_dictionary_description_value") 'NoSourceUnpackedness 'NoSourceStrictness 'DecidedLazy) (Rec0 ByteString)))

data SAM_V1_6_Reference_Sequence_Dictionary_MD5_Checksum

M5 tag for SAM_V1_6_Reference_Sequence_Dictionary.

Constructors

SAM_V1_6_Reference_Sequence_Dictionary_MD5_Checksum

Fields

• sam_v1_6_reference_sequence_dictionary_md5_checksum_tag :: Seq Word8
• sam_v1_6_reference_sequence_dictionary_md5_checksum_value :: ByteString

Instances

Generic SAM_V1_6_Reference_Sequence_Dictionary_MD5_Checksum

Defined in Data.SAM.Version1_6.Header.SQ

Associated Types

type Rep SAM_V1_6_Reference_Sequence_Dictionary_MD5_Checksum :: Type -> Type

Methods

from :: SAM_V1_6_Reference_Sequence_Dictionary_MD5_Checksum -> Rep SAM_V1_6_Reference_Sequence_Dictionary_MD5_Checksum x

to :: Rep SAM_V1_6_Reference_Sequence_Dictionary_MD5_Checksum x -> SAM_V1_6_Reference_Sequence_Dictionary_MD5_Checksum

Show SAM_V1_6_Reference_Sequence_Dictionary_MD5_Checksum

Show instance for SAM_V1_6_Reference_Sequence_Dictionary_MD5_Checksum.

Defined in Data.SAM.Version1_6.Header.SQ

Methods

showsPrec :: Int -> SAM_V1_6_Reference_Sequence_Dictionary_MD5_Checksum -> ShowS

show :: SAM_V1_6_Reference_Sequence_Dictionary_MD5_Checksum -> String

showList :: [SAM_V1_6_Reference_Sequence_Dictionary_MD5_Checksum] -> ShowS

Eq SAM_V1_6_Reference_Sequence_Dictionary_MD5_Checksum

Eq instance for SAM_V1_6_Reference_Sequence_Dictionary_MD5_Checksum.

Defined in Data.SAM.Version1_6.Header.SQ

Methods

(==) :: SAM_V1_6_Reference_Sequence_Dictionary_MD5_Checksum -> SAM_V1_6_Reference_Sequence_Dictionary_MD5_Checksum -> Bool

(/=) :: SAM_V1_6_Reference_Sequence_Dictionary_MD5_Checksum -> SAM_V1_6_Reference_Sequence_Dictionary_MD5_Checksum -> Bool

type Rep SAM_V1_6_Reference_Sequence_Dictionary_MD5_Checksum

Defined in Data.SAM.Version1_6.Header.SQ

type Rep SAM_V1_6_Reference_Sequence_Dictionary_MD5_Checksum = D1 ('MetaData "SAM_V1_6_Reference_Sequence_Dictionary_MD5_Checksum" "Data.SAM.Version1_6.Header.SQ" "hs-samtools-0.2.0.0-inplace" 'False) (C1 ('MetaCons "SAM_V1_6_Reference_Sequence_Dictionary_MD5_Checksum" 'PrefixI 'True) (S1 ('MetaSel ('Just "sam_v1_6_reference_sequence_dictionary_md5_checksum_tag") 'NoSourceUnpackedness 'NoSourceStrictness 'DecidedLazy) (Rec0 (Seq Word8)) :*: S1 ('MetaSel ('Just "sam_v1_6_reference_sequence_dictionary_md5_checksum_value") 'NoSourceUnpackedness 'NoSourceStrictness 'DecidedLazy) (Rec0 ByteString)))

data SAM_V1_6_Reference_Sequence_Dictionary_Species

SP tag for SAM_V1_6_Reference_Sequence_Dictionary.

Constructors

SAM_V1_6_Reference_Sequence_Dictionary_Species

Fields

• sam_v1_6_reference_sequence_dictionary_species_tag :: Seq Word8
• sam_v1_6_reference_sequence_dictionary_species_value :: ByteString

Instances

Generic SAM_V1_6_Reference_Sequence_Dictionary_Species

Defined in Data.SAM.Version1_6.Header.SQ

Associated Types

type Rep SAM_V1_6_Reference_Sequence_Dictionary_Species :: Type -> Type

Methods

from :: SAM_V1_6_Reference_Sequence_Dictionary_Species -> Rep SAM_V1_6_Reference_Sequence_Dictionary_Species x

to :: Rep SAM_V1_6_Reference_Sequence_Dictionary_Species x -> SAM_V1_6_Reference_Sequence_Dictionary_Species

Show SAM_V1_6_Reference_Sequence_Dictionary_Species

Show instance for SAM_V1_6_Reference_Sequence_Dictionary_Species.

Defined in Data.SAM.Version1_6.Header.SQ

Methods

showsPrec :: Int -> SAM_V1_6_Reference_Sequence_Dictionary_Species -> ShowS

show :: SAM_V1_6_Reference_Sequence_Dictionary_Species -> String

showList :: [SAM_V1_6_Reference_Sequence_Dictionary_Species] -> ShowS

Eq SAM_V1_6_Reference_Sequence_Dictionary_Species

Eq instance for SAM_V1_6_Reference_Sequence_Dictionary_Species.

Defined in Data.SAM.Version1_6.Header.SQ

Methods

(==) :: SAM_V1_6_Reference_Sequence_Dictionary_Species -> SAM_V1_6_Reference_Sequence_Dictionary_Species -> Bool

(/=) :: SAM_V1_6_Reference_Sequence_Dictionary_Species -> SAM_V1_6_Reference_Sequence_Dictionary_Species -> Bool

type Rep SAM_V1_6_Reference_Sequence_Dictionary_Species

Defined in Data.SAM.Version1_6.Header.SQ

type Rep SAM_V1_6_Reference_Sequence_Dictionary_Species = D1 ('MetaData "SAM_V1_6_Reference_Sequence_Dictionary_Species" "Data.SAM.Version1_6.Header.SQ" "hs-samtools-0.2.0.0-inplace" 'False) (C1 ('MetaCons "SAM_V1_6_Reference_Sequence_Dictionary_Species" 'PrefixI 'True) (S1 ('MetaSel ('Just "sam_v1_6_reference_sequence_dictionary_species_tag") 'NoSourceUnpackedness 'NoSourceStrictness 'DecidedLazy) (Rec0 (Seq Word8)) :*: S1 ('MetaSel ('Just "sam_v1_6_reference_sequence_dictionary_species_value") 'NoSourceUnpackedness 'NoSourceStrictness 'DecidedLazy) (Rec0 ByteString)))

data SAM_V1_6_Reference_Sequence_Dictionary_Molecule_Topology

TP tag for SAM_V1_6_Reference_Sequence_Dictionary.

Constructors

SAM_V1_6_Reference_Sequence_Dictionary_Molecule_Topology

Fields

• sam_v1_6_reference_sequence_dictionary_molecule_topology_tag :: Seq Word8
• sam_v1_6_reference_sequence_dictionary_molecule_topology_value :: ByteString

Instances

Generic SAM_V1_6_Reference_Sequence_Dictionary_Molecule_Topology

Defined in Data.SAM.Version1_6.Header.SQ

Associated Types

type Rep SAM_V1_6_Reference_Sequence_Dictionary_Molecule_Topology :: Type -> Type

Methods

from :: SAM_V1_6_Reference_Sequence_Dictionary_Molecule_Topology -> Rep SAM_V1_6_Reference_Sequence_Dictionary_Molecule_Topology x

to :: Rep SAM_V1_6_Reference_Sequence_Dictionary_Molecule_Topology x -> SAM_V1_6_Reference_Sequence_Dictionary_Molecule_Topology

Show SAM_V1_6_Reference_Sequence_Dictionary_Molecule_Topology

Show instance for SAM_V1_6_Reference_Sequence_Dictionary_Molecule_Topology.

Defined in Data.SAM.Version1_6.Header.SQ

Methods

showsPrec :: Int -> SAM_V1_6_Reference_Sequence_Dictionary_Molecule_Topology -> ShowS

show :: SAM_V1_6_Reference_Sequence_Dictionary_Molecule_Topology -> String

showList :: [SAM_V1_6_Reference_Sequence_Dictionary_Molecule_Topology] -> ShowS

Eq SAM_V1_6_Reference_Sequence_Dictionary_Molecule_Topology

Eq instance for SAM_V1_6_Reference_Sequence_Dictionary_Molecule_Topology.

Defined in Data.SAM.Version1_6.Header.SQ

Methods

(==) :: SAM_V1_6_Reference_Sequence_Dictionary_Molecule_Topology -> SAM_V1_6_Reference_Sequence_Dictionary_Molecule_Topology -> Bool

(/=) :: SAM_V1_6_Reference_Sequence_Dictionary_Molecule_Topology -> SAM_V1_6_Reference_Sequence_Dictionary_Molecule_Topology -> Bool

type Rep SAM_V1_6_Reference_Sequence_Dictionary_Molecule_Topology

Defined in Data.SAM.Version1_6.Header.SQ

type Rep SAM_V1_6_Reference_Sequence_Dictionary_Molecule_Topology = D1 ('MetaData "SAM_V1_6_Reference_Sequence_Dictionary_Molecule_Topology" "Data.SAM.Version1_6.Header.SQ" "hs-samtools-0.2.0.0-inplace" 'False) (C1 ('MetaCons "SAM_V1_6_Reference_Sequence_Dictionary_Molecule_Topology" 'PrefixI 'True) (S1 ('MetaSel ('Just "sam_v1_6_reference_sequence_dictionary_molecule_topology_tag") 'NoSourceUnpackedness 'NoSourceStrictness 'DecidedLazy) (Rec0 (Seq Word8)) :*: S1 ('MetaSel ('Just "sam_v1_6_reference_sequence_dictionary_molecule_topology_value") 'NoSourceUnpackedness 'NoSourceStrictness 'DecidedLazy) (Rec0 ByteString)))

data SAM_V1_6_Reference_Sequence_Dictionary_URI

UR tag for SAM_V1_6_Reference_Sequence_Dictionary.

Constructors

SAM_V1_6_Reference_Sequence_Dictionary_URI

Fields

• sam_v1_6_reference_sequence_dictionary_uri_tag :: Seq Word8
• sam_v1_6_reference_sequence_dictionary_uri_value :: ByteString

Instances

Generic SAM_V1_6_Reference_Sequence_Dictionary_URI

Defined in Data.SAM.Version1_6.Header.SQ

Associated Types

type Rep SAM_V1_6_Reference_Sequence_Dictionary_URI :: Type -> Type

Methods

from :: SAM_V1_6_Reference_Sequence_Dictionary_URI -> Rep SAM_V1_6_Reference_Sequence_Dictionary_URI x

to :: Rep SAM_V1_6_Reference_Sequence_Dictionary_URI x -> SAM_V1_6_Reference_Sequence_Dictionary_URI

Show SAM_V1_6_Reference_Sequence_Dictionary_URI

Show instance for SAM_V1_6_Reference_Sequence_Dictionary_URI.

Defined in Data.SAM.Version1_6.Header.SQ

Methods

showsPrec :: Int -> SAM_V1_6_Reference_Sequence_Dictionary_URI -> ShowS

show :: SAM_V1_6_Reference_Sequence_Dictionary_URI -> String

showList :: [SAM_V1_6_Reference_Sequence_Dictionary_URI] -> ShowS

Eq SAM_V1_6_Reference_Sequence_Dictionary_URI

Eq instance for SAM_V1_6_Reference_Sequence_Dictionary_URI.

Defined in Data.SAM.Version1_6.Header.SQ

Methods

(==) :: SAM_V1_6_Reference_Sequence_Dictionary_URI -> SAM_V1_6_Reference_Sequence_Dictionary_URI -> Bool

(/=) :: SAM_V1_6_Reference_Sequence_Dictionary_URI -> SAM_V1_6_Reference_Sequence_Dictionary_URI -> Bool

type Rep SAM_V1_6_Reference_Sequence_Dictionary_URI

Defined in Data.SAM.Version1_6.Header.SQ

type Rep SAM_V1_6_Reference_Sequence_Dictionary_URI = D1 ('MetaData "SAM_V1_6_Reference_Sequence_Dictionary_URI" "Data.SAM.Version1_6.Header.SQ" "hs-samtools-0.2.0.0-inplace" 'False) (C1 ('MetaCons "SAM_V1_6_Reference_Sequence_Dictionary_URI" 'PrefixI 'True) (S1 ('MetaSel ('Just "sam_v1_6_reference_sequence_dictionary_uri_tag") 'NoSourceUnpackedness 'NoSourceStrictness 'DecidedLazy) (Rec0 (Seq Word8)) :*: S1 ('MetaSel ('Just "sam_v1_6_reference_sequence_dictionary_uri_value") 'NoSourceUnpackedness 'NoSourceStrictness 'DecidedLazy) (Rec0 ByteString)))