Copyright	(c) Matthew Mosior 2024
License	BSD-style
Maintainer	mattm.github@gmail.com
Portability	portable
Safe Haskell	Safe-Inferred
Language	Haskell2010

Data.BAM.Version1_6.BAM.Header.HD

Contents

BAM version 1.6 File-level metadata data type
BAM version 1.6 File-Level Metadata data types

Description

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

Synopsis

data BAM_V1_6_File_Level_Metadata = BAM_V1_6_File_Level_Metadata {
}
newtype BAM_V1_6_File_Level_Metadata_Format_Version = BAM_V1_6_File_Level_Metadata_Format_Version {
- bam_v1_6_file_level_metadata_format_version_value :: ByteString
}
newtype BAM_V1_6_File_Level_Metadata_Sorting_Order = BAM_V1_6_File_Level_Metadata_Sorting_Order {
- bam_v1_6_file_level_metadata_sorting_order_value :: ByteString
}
newtype BAM_V1_6_File_Level_Metadata_Alignment_Grouping = BAM_V1_6_File_Level_Metadata_Alignment_Grouping {
- bam_v1_6_file_level_metadata_alignment_grouping_value :: ByteString
}
newtype BAM_V1_6_File_Level_Metadata_SubSorting_Order = BAM_V1_6_File_Level_Metadata_SubSorting_Order {
- bam_v1_6_file_level_metadata_subsorting_order_value :: ByteString
}

BAM version 1.6 File-level metadata data type

data BAM_V1_6_File_Level_Metadata Source #

Custom BAM (version 1.6) BAM_V1_6_File_Level_Metadata data type.

See section 4.2 of the SAM v1.6 specification documentation.

Constructors

BAM_V1_6_File_Level_Metadata

Fields

Instances

Instances details

Generic BAM_V1_6_File_Level_Metadata Source #
Instance details Defined in Data.BAM.Version1_6.BAM.Header.HD Associated Types type Rep BAM_V1_6_File_Level_Metadata :: Type -> Type # Methods from :: BAM_V1_6_File_Level_Metadata -> Rep BAM_V1_6_File_Level_Metadata x # to :: Rep BAM_V1_6_File_Level_Metadata x -> BAM_V1_6_File_Level_Metadata #
Show BAM_V1_6_File_Level_Metadata Source #
Instance details Defined in Data.BAM.Version1_6.BAM.Header.HD Methods showsPrec :: Int -> BAM_V1_6_File_Level_Metadata -> ShowS # show :: BAM_V1_6_File_Level_Metadata -> String # showList :: [BAM_V1_6_File_Level_Metadata] -> ShowS #
Eq BAM_V1_6_File_Level_Metadata Source #
Instance details Defined in Data.BAM.Version1_6.BAM.Header.HD Methods (==) :: BAM_V1_6_File_Level_Metadata -> BAM_V1_6_File_Level_Metadata -> Bool # (/=) :: BAM_V1_6_File_Level_Metadata -> BAM_V1_6_File_Level_Metadata -> Bool #
type Rep BAM_V1_6_File_Level_Metadata Source #
Instance details Defined in Data.BAM.Version1_6.BAM.Header.HD type Rep BAM_V1_6_File_Level_Metadata = D1 ('MetaData "BAM_V1_6_File_Level_Metadata" "Data.BAM.Version1_6.BAM.Header.HD" "hs-samtools-0.10.0.3-inplace" 'False) (C1 ('MetaCons "BAM_V1_6_File_Level_Metadata" 'PrefixI 'True) ((S1 ('MetaSel ('Just "bam_v1_6_file_level_metadata_format_version") 'NoSourceUnpackedness 'NoSourceStrictness 'DecidedStrict) (Rec0 BAM_V1_6_File_Level_Metadata_Format_Version) :: S1 ('MetaSel ('Just "bam_v1_6_file_level_metadata_sorting_order") 'NoSourceUnpackedness 'NoSourceStrictness 'DecidedStrict) (Rec0 (Maybe BAM_V1_6_File_Level_Metadata_Sorting_Order))) :: (S1 ('MetaSel ('Just "bam_v1_6_file_level_metadata_alignment_grouping") 'NoSourceUnpackedness 'NoSourceStrictness 'DecidedStrict) (Rec0 (Maybe BAM_V1_6_File_Level_Metadata_Alignment_Grouping)) :*: S1 ('MetaSel ('Just "bam_v1_6_file_level_metadata_subsorting_order") 'NoSourceUnpackedness 'NoSourceStrictness 'DecidedStrict) (Rec0 (Maybe BAM_V1_6_File_Level_Metadata_SubSorting_Order)))))

BAM version 1.6 File-Level Metadata data types

newtype BAM_V1_6_File_Level_Metadata_Format_Version Source #

VN tag for BAM_V1_6_File_Level_Metadata.

Constructors

BAM_V1_6_File_Level_Metadata_Format_Version
Fields bam_v1_6_file_level_metadata_format_version_value :: ByteString

Instances

Instances details

Generic BAM_V1_6_File_Level_Metadata_Format_Version Source #
Instance details Defined in Data.BAM.Version1_6.BAM.Header.HD Associated Types type Rep BAM_V1_6_File_Level_Metadata_Format_Version :: Type -> Type # Methods from :: BAM_V1_6_File_Level_Metadata_Format_Version -> Rep BAM_V1_6_File_Level_Metadata_Format_Version x # to :: Rep BAM_V1_6_File_Level_Metadata_Format_Version x -> BAM_V1_6_File_Level_Metadata_Format_Version #
Show BAM_V1_6_File_Level_Metadata_Format_Version Source #
Instance details Defined in Data.BAM.Version1_6.BAM.Header.HD Methods showsPrec :: Int -> BAM_V1_6_File_Level_Metadata_Format_Version -> ShowS # show :: BAM_V1_6_File_Level_Metadata_Format_Version -> String # showList :: [BAM_V1_6_File_Level_Metadata_Format_Version] -> ShowS #
Eq BAM_V1_6_File_Level_Metadata_Format_Version Source #
Instance details Defined in Data.BAM.Version1_6.BAM.Header.HD Methods (==) :: BAM_V1_6_File_Level_Metadata_Format_Version -> BAM_V1_6_File_Level_Metadata_Format_Version -> Bool # (/=) :: BAM_V1_6_File_Level_Metadata_Format_Version -> BAM_V1_6_File_Level_Metadata_Format_Version -> Bool #
type Rep BAM_V1_6_File_Level_Metadata_Format_Version Source #
Instance details Defined in Data.BAM.Version1_6.BAM.Header.HD type Rep BAM_V1_6_File_Level_Metadata_Format_Version = D1 ('MetaData "BAM_V1_6_File_Level_Metadata_Format_Version" "Data.BAM.Version1_6.BAM.Header.HD" "hs-samtools-0.10.0.3-inplace" 'True) (C1 ('MetaCons "BAM_V1_6_File_Level_Metadata_Format_Version" 'PrefixI 'True) (S1 ('MetaSel ('Just "bam_v1_6_file_level_metadata_format_version_value") 'NoSourceUnpackedness 'NoSourceStrictness 'DecidedLazy) (Rec0 ByteString)))

newtype BAM_V1_6_File_Level_Metadata_Sorting_Order Source #

SO tag for BAM_V1_6_File_Level_Metadata.

Constructors

BAM_V1_6_File_Level_Metadata_Sorting_Order
Fields bam_v1_6_file_level_metadata_sorting_order_value :: ByteString

Instances

Instances details

Generic BAM_V1_6_File_Level_Metadata_Sorting_Order Source #
Instance details Defined in Data.BAM.Version1_6.BAM.Header.HD Associated Types type Rep BAM_V1_6_File_Level_Metadata_Sorting_Order :: Type -> Type # Methods from :: BAM_V1_6_File_Level_Metadata_Sorting_Order -> Rep BAM_V1_6_File_Level_Metadata_Sorting_Order x # to :: Rep BAM_V1_6_File_Level_Metadata_Sorting_Order x -> BAM_V1_6_File_Level_Metadata_Sorting_Order #
Show BAM_V1_6_File_Level_Metadata_Sorting_Order Source #
Instance details Defined in Data.BAM.Version1_6.BAM.Header.HD Methods showsPrec :: Int -> BAM_V1_6_File_Level_Metadata_Sorting_Order -> ShowS # show :: BAM_V1_6_File_Level_Metadata_Sorting_Order -> String # showList :: [BAM_V1_6_File_Level_Metadata_Sorting_Order] -> ShowS #
Eq BAM_V1_6_File_Level_Metadata_Sorting_Order Source #
Instance details Defined in Data.BAM.Version1_6.BAM.Header.HD Methods (==) :: BAM_V1_6_File_Level_Metadata_Sorting_Order -> BAM_V1_6_File_Level_Metadata_Sorting_Order -> Bool # (/=) :: BAM_V1_6_File_Level_Metadata_Sorting_Order -> BAM_V1_6_File_Level_Metadata_Sorting_Order -> Bool #
type Rep BAM_V1_6_File_Level_Metadata_Sorting_Order Source #
Instance details Defined in Data.BAM.Version1_6.BAM.Header.HD type Rep BAM_V1_6_File_Level_Metadata_Sorting_Order = D1 ('MetaData "BAM_V1_6_File_Level_Metadata_Sorting_Order" "Data.BAM.Version1_6.BAM.Header.HD" "hs-samtools-0.10.0.3-inplace" 'True) (C1 ('MetaCons "BAM_V1_6_File_Level_Metadata_Sorting_Order" 'PrefixI 'True) (S1 ('MetaSel ('Just "bam_v1_6_file_level_metadata_sorting_order_value") 'NoSourceUnpackedness 'NoSourceStrictness 'DecidedLazy) (Rec0 ByteString)))

newtype BAM_V1_6_File_Level_Metadata_Alignment_Grouping Source #

GO tag for BAM_V1_6_File_Level_Metadata.

Constructors

BAM_V1_6_File_Level_Metadata_Alignment_Grouping
Fields bam_v1_6_file_level_metadata_alignment_grouping_value :: ByteString

Instances

Instances details

Generic BAM_V1_6_File_Level_Metadata_Alignment_Grouping Source #
Instance details Defined in Data.BAM.Version1_6.BAM.Header.HD Associated Types type Rep BAM_V1_6_File_Level_Metadata_Alignment_Grouping :: Type -> Type # Methods from :: BAM_V1_6_File_Level_Metadata_Alignment_Grouping -> Rep BAM_V1_6_File_Level_Metadata_Alignment_Grouping x # to :: Rep BAM_V1_6_File_Level_Metadata_Alignment_Grouping x -> BAM_V1_6_File_Level_Metadata_Alignment_Grouping #
Show BAM_V1_6_File_Level_Metadata_Alignment_Grouping Source #
Instance details Defined in Data.BAM.Version1_6.BAM.Header.HD Methods showsPrec :: Int -> BAM_V1_6_File_Level_Metadata_Alignment_Grouping -> ShowS # show :: BAM_V1_6_File_Level_Metadata_Alignment_Grouping -> String # showList :: [BAM_V1_6_File_Level_Metadata_Alignment_Grouping] -> ShowS #
Eq BAM_V1_6_File_Level_Metadata_Alignment_Grouping Source #
Instance details Defined in Data.BAM.Version1_6.BAM.Header.HD Methods (==) :: BAM_V1_6_File_Level_Metadata_Alignment_Grouping -> BAM_V1_6_File_Level_Metadata_Alignment_Grouping -> Bool # (/=) :: BAM_V1_6_File_Level_Metadata_Alignment_Grouping -> BAM_V1_6_File_Level_Metadata_Alignment_Grouping -> Bool #
type Rep BAM_V1_6_File_Level_Metadata_Alignment_Grouping Source #
Instance details Defined in Data.BAM.Version1_6.BAM.Header.HD type Rep BAM_V1_6_File_Level_Metadata_Alignment_Grouping = D1 ('MetaData "BAM_V1_6_File_Level_Metadata_Alignment_Grouping" "Data.BAM.Version1_6.BAM.Header.HD" "hs-samtools-0.10.0.3-inplace" 'True) (C1 ('MetaCons "BAM_V1_6_File_Level_Metadata_Alignment_Grouping" 'PrefixI 'True) (S1 ('MetaSel ('Just "bam_v1_6_file_level_metadata_alignment_grouping_value") 'NoSourceUnpackedness 'NoSourceStrictness 'DecidedLazy) (Rec0 ByteString)))

newtype BAM_V1_6_File_Level_Metadata_SubSorting_Order Source #

SS tag for BAM_V1_6_File_Level_Metadata.

Constructors

BAM_V1_6_File_Level_Metadata_SubSorting_Order
Fields bam_v1_6_file_level_metadata_subsorting_order_value :: ByteString

Instances

Instances details

Generic BAM_V1_6_File_Level_Metadata_SubSorting_Order Source #
Instance details Defined in Data.BAM.Version1_6.BAM.Header.HD Associated Types type Rep BAM_V1_6_File_Level_Metadata_SubSorting_Order :: Type -> Type # Methods from :: BAM_V1_6_File_Level_Metadata_SubSorting_Order -> Rep BAM_V1_6_File_Level_Metadata_SubSorting_Order x # to :: Rep BAM_V1_6_File_Level_Metadata_SubSorting_Order x -> BAM_V1_6_File_Level_Metadata_SubSorting_Order #
Show BAM_V1_6_File_Level_Metadata_SubSorting_Order Source #
Instance details Defined in Data.BAM.Version1_6.BAM.Header.HD Methods showsPrec :: Int -> BAM_V1_6_File_Level_Metadata_SubSorting_Order -> ShowS # show :: BAM_V1_6_File_Level_Metadata_SubSorting_Order -> String # showList :: [BAM_V1_6_File_Level_Metadata_SubSorting_Order] -> ShowS #
Eq BAM_V1_6_File_Level_Metadata_SubSorting_Order Source #
Instance details Defined in Data.BAM.Version1_6.BAM.Header.HD Methods (==) :: BAM_V1_6_File_Level_Metadata_SubSorting_Order -> BAM_V1_6_File_Level_Metadata_SubSorting_Order -> Bool # (/=) :: BAM_V1_6_File_Level_Metadata_SubSorting_Order -> BAM_V1_6_File_Level_Metadata_SubSorting_Order -> Bool #
type Rep BAM_V1_6_File_Level_Metadata_SubSorting_Order Source #
Instance details Defined in Data.BAM.Version1_6.BAM.Header.HD type Rep BAM_V1_6_File_Level_Metadata_SubSorting_Order = D1 ('MetaData "BAM_V1_6_File_Level_Metadata_SubSorting_Order" "Data.BAM.Version1_6.BAM.Header.HD" "hs-samtools-0.10.0.3-inplace" 'True) (C1 ('MetaCons "BAM_V1_6_File_Level_Metadata_SubSorting_Order" 'PrefixI 'True) (S1 ('MetaSel ('Just "bam_v1_6_file_level_metadata_subsorting_order_value") 'NoSourceUnpackedness 'NoSourceStrictness 'DecidedLazy) (Rec0 ByteString)))