hs-samtools-0.2.0.0: Read and write SAM, BAM, and CRAM files.
Copyright(c) Matthew Mosior 2023
LicenseBSD-style
Maintainermattm.github@gmail.com
Portabilityportable
Safe HaskellSafe-Inferred
LanguageHaskell2010

Data.SAM.Version1_6.Header.HD

Description

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.

Synopsis

SAM version 1.6 File-level metadata data type

data SAM_V1_6_File_Level_Metadata Source #

Custom SAM (version 1.6) SAM_V1_6_File_Level_Metadata data type. See section 1.3 of the SAM v1.6 specification documentation.

Instances

Instances details
Generic SAM_V1_6_File_Level_Metadata Source # 
Instance details

Defined in Data.SAM.Version1_6.Header.HD

Associated Types

type Rep SAM_V1_6_File_Level_Metadata :: Type -> Type #

type Rep SAM_V1_6_File_Level_Metadata Source # 
Instance details

Defined in Data.SAM.Version1_6.Header.HD

type Rep SAM_V1_6_File_Level_Metadata = D1 ('MetaData "SAM_V1_6_File_Level_Metadata" "Data.SAM.Version1_6.Header.HD" "hs-samtools-0.2.0.0-inplace" 'False) (C1 ('MetaCons "SAM_V1_6_File_Level_Metadata" 'PrefixI 'True) ((S1 ('MetaSel ('Just "sam_v1_6_file_level_metadata_format_version") 'NoSourceUnpackedness 'NoSourceStrictness 'DecidedLazy) (Rec0 SAM_V1_6_File_Level_Metadata_Format_Version) :*: S1 ('MetaSel ('Just "sam_v1_6_file_level_metadata_sorting_order") 'NoSourceUnpackedness 'NoSourceStrictness 'DecidedLazy) (Rec0 (Maybe SAM_V1_6_File_Level_Metadata_Sorting_Order))) :*: (S1 ('MetaSel ('Just "sam_v1_6_file_level_metadata_alignment_grouping") 'NoSourceUnpackedness 'NoSourceStrictness 'DecidedLazy) (Rec0 (Maybe SAM_V1_6_File_Level_Metadata_Alignment_Grouping)) :*: S1 ('MetaSel ('Just "sam_v1_6_file_level_metadata_subsorting_order") 'NoSourceUnpackedness 'NoSourceStrictness 'DecidedLazy) (Rec0 (Maybe SAM_V1_6_File_Level_Metadata_SubSorting_Order)))))

SAM version 1.6 File-Level Metadata data types

data SAM_V1_6_File_Level_Metadata_Format_Version Source #

Instances

Instances details
Generic SAM_V1_6_File_Level_Metadata_Format_Version Source # 
Instance details

Defined in Data.SAM.Version1_6.Header.HD

Show SAM_V1_6_File_Level_Metadata_Format_Version Source #

Show instance for SAM_V1_6_File_Level_Metadata_Format_Version.

Instance details

Defined in Data.SAM.Version1_6.Header.HD

Eq SAM_V1_6_File_Level_Metadata_Format_Version Source #

Eq instance for SAM_V1_6_File_Level_Metadata_Format_Version.

Instance details

Defined in Data.SAM.Version1_6.Header.HD

type Rep SAM_V1_6_File_Level_Metadata_Format_Version Source # 
Instance details

Defined in Data.SAM.Version1_6.Header.HD

type Rep SAM_V1_6_File_Level_Metadata_Format_Version = D1 ('MetaData "SAM_V1_6_File_Level_Metadata_Format_Version" "Data.SAM.Version1_6.Header.HD" "hs-samtools-0.2.0.0-inplace" 'False) (C1 ('MetaCons "SAM_V1_6_File_Level_Metadata_Format_Version" 'PrefixI 'True) (S1 ('MetaSel ('Just "sam_v1_6_file_level_metadata_format_version_tag") 'NoSourceUnpackedness 'NoSourceStrictness 'DecidedLazy) (Rec0 (Seq Word8)) :*: S1 ('MetaSel ('Just "sam_v1_6_file_level_metadata_format_version_value") 'NoSourceUnpackedness 'NoSourceStrictness 'DecidedLazy) (Rec0 ByteString)))

data SAM_V1_6_File_Level_Metadata_Sorting_Order Source #

Instances

Instances details
Generic SAM_V1_6_File_Level_Metadata_Sorting_Order Source # 
Instance details

Defined in Data.SAM.Version1_6.Header.HD

Show SAM_V1_6_File_Level_Metadata_Sorting_Order Source #

Show instance for SAM_V1_6_File_Level_Metadata_Sorting_Order.

Instance details

Defined in Data.SAM.Version1_6.Header.HD

Eq SAM_V1_6_File_Level_Metadata_Sorting_Order Source #

Eq instance for SAM_V1_6_File_Level_Metadata_Sorting_Order.

Instance details

Defined in Data.SAM.Version1_6.Header.HD

type Rep SAM_V1_6_File_Level_Metadata_Sorting_Order Source # 
Instance details

Defined in Data.SAM.Version1_6.Header.HD

type Rep SAM_V1_6_File_Level_Metadata_Sorting_Order = D1 ('MetaData "SAM_V1_6_File_Level_Metadata_Sorting_Order" "Data.SAM.Version1_6.Header.HD" "hs-samtools-0.2.0.0-inplace" 'False) (C1 ('MetaCons "SAM_V1_6_File_Level_Metadata_Sorting_Order" 'PrefixI 'True) (S1 ('MetaSel ('Just "sam_v1_6_file_level_metadata_sorting_order_tag") 'NoSourceUnpackedness 'NoSourceStrictness 'DecidedLazy) (Rec0 (Seq Word8)) :*: S1 ('MetaSel ('Just "sam_v1_6_file_level_metadata_sorting_order_value") 'NoSourceUnpackedness 'NoSourceStrictness 'DecidedLazy) (Rec0 ByteString)))

data SAM_V1_6_File_Level_Metadata_Alignment_Grouping Source #

Instances

Instances details
Generic SAM_V1_6_File_Level_Metadata_Alignment_Grouping Source # 
Instance details

Defined in Data.SAM.Version1_6.Header.HD

Show SAM_V1_6_File_Level_Metadata_Alignment_Grouping Source #

Show instance for SAM_V1_6_File_Level_Metadata_Alignment_Grouping.

Instance details

Defined in Data.SAM.Version1_6.Header.HD

Eq SAM_V1_6_File_Level_Metadata_Alignment_Grouping Source #

Eq instance for SAM_V1_6_File_Level_Metadata_Alignment_Grouping.

Instance details

Defined in Data.SAM.Version1_6.Header.HD

type Rep SAM_V1_6_File_Level_Metadata_Alignment_Grouping Source # 
Instance details

Defined in Data.SAM.Version1_6.Header.HD

type Rep SAM_V1_6_File_Level_Metadata_Alignment_Grouping = D1 ('MetaData "SAM_V1_6_File_Level_Metadata_Alignment_Grouping" "Data.SAM.Version1_6.Header.HD" "hs-samtools-0.2.0.0-inplace" 'False) (C1 ('MetaCons "SAM_V1_6_File_Level_Metadata_Alignment_Grouping" 'PrefixI 'True) (S1 ('MetaSel ('Just "sam_v1_6_file_level_metadata_alignment_grouping_tag") 'NoSourceUnpackedness 'NoSourceStrictness 'DecidedLazy) (Rec0 (Seq Word8)) :*: S1 ('MetaSel ('Just "sam_v1_6_file_level_metadata_alignment_grouping_value") 'NoSourceUnpackedness 'NoSourceStrictness 'DecidedLazy) (Rec0 ByteString)))

data SAM_V1_6_File_Level_Metadata_SubSorting_Order Source #

Instances

Instances details
Generic SAM_V1_6_File_Level_Metadata_SubSorting_Order Source # 
Instance details

Defined in Data.SAM.Version1_6.Header.HD

Show SAM_V1_6_File_Level_Metadata_SubSorting_Order Source #

Show instance for SAM_V1_6_File_Level_Metadata_SubSorting_Order.

Instance details

Defined in Data.SAM.Version1_6.Header.HD

Eq SAM_V1_6_File_Level_Metadata_SubSorting_Order Source #

Eq instance for SAM_V1_6_File_Level_Metadata_SubSorting_Order.

Instance details

Defined in Data.SAM.Version1_6.Header.HD

type Rep SAM_V1_6_File_Level_Metadata_SubSorting_Order Source # 
Instance details

Defined in Data.SAM.Version1_6.Header.HD

type Rep SAM_V1_6_File_Level_Metadata_SubSorting_Order = D1 ('MetaData "SAM_V1_6_File_Level_Metadata_SubSorting_Order" "Data.SAM.Version1_6.Header.HD" "hs-samtools-0.2.0.0-inplace" 'False) (C1 ('MetaCons "SAM_V1_6_File_Level_Metadata_SubSorting_Order" 'PrefixI 'True) (S1 ('MetaSel ('Just "sam_v1_6_file_level_metadata_subsorting_order_tag") 'NoSourceUnpackedness 'NoSourceStrictness 'DecidedLazy) (Rec0 (Seq Word8)) :*: S1 ('MetaSel ('Just "sam_v1_6_file_level_metadata_subsorting_order_value") 'NoSourceUnpackedness 'NoSourceStrictness 'DecidedLazy) (Rec0 ByteString)))