Copyright | (c) Matthew Mosior 2023 |
---|---|
License | BSD-style |
Maintainer | mattm.github@gmail.com |
Portability | portable |
Safe Haskell | Safe-Inferred |
Language | Haskell2010 |
Description
This library enables the decoding/encoding of SAM, BAM and CRAM file formats.
Synopsis
- data SAM_V1_6_Program = SAM_V1_6_Program {
- sam_v1_6_program_record_identifier :: SAM_V1_6_Program_Record_Identifier
- sam_v1_6_program_name :: Maybe SAM_V1_6_Program_Name
- sam_v1_6_program_command_line :: Maybe SAM_V1_6_Program_Command_Line
- sam_v1_6_program_previous_pg_id :: Maybe SAM_V1_6_Program_Previous_PG_ID
- sam_v1_6_program_description :: Maybe SAM_V1_6_Program_Description
- sam_v1_6_program_version :: Maybe SAM_V1_6_Program_Version
- newtype SAM_V1_6_Program_Record_Identifier = SAM_V1_6_Program_Record_Identifier {}
- newtype SAM_V1_6_Program_Name = SAM_V1_6_Program_Name {}
- newtype SAM_V1_6_Program_Command_Line = SAM_V1_6_Program_Command_Line {}
- newtype SAM_V1_6_Program_Previous_PG_ID = SAM_V1_6_Program_Previous_PG_ID {}
- newtype SAM_V1_6_Program_Description = SAM_V1_6_Program_Description {}
- newtype SAM_V1_6_Program_Version = SAM_V1_6_Program_Version {}
SAM version 1.6 program data type
data SAM_V1_6_Program Source #
Custom SAM (version 1.6) SAM_V1_6_Program
data type.
See section 1.3 of the SAM v1.6 specification documentation.
Instances
SAM version 1.6 program data types
newtype SAM_V1_6_Program_Record_Identifier Source #
ID tag for SAM_V1_6_Program
.
Instances
Generic SAM_V1_6_Program_Record_Identifier Source # | |
Show SAM_V1_6_Program_Record_Identifier Source # | |
Defined in Data.SAM.Version1_6.Header.PG | |
Eq SAM_V1_6_Program_Record_Identifier Source # | |
type Rep SAM_V1_6_Program_Record_Identifier Source # | |
Defined in Data.SAM.Version1_6.Header.PG type Rep SAM_V1_6_Program_Record_Identifier = D1 ('MetaData "SAM_V1_6_Program_Record_Identifier" "Data.SAM.Version1_6.Header.PG" "hs-samtools-0.6.0.0-inplace" 'True) (C1 ('MetaCons "SAM_V1_6_Program_Record_Identifier" 'PrefixI 'True) (S1 ('MetaSel ('Just "sam_v1_6_program_record_identifier_value") 'NoSourceUnpackedness 'NoSourceStrictness 'DecidedLazy) (Rec0 ByteString))) |
newtype SAM_V1_6_Program_Name Source #
PN tag for SAM_V1_6_Program
.
Instances
Generic SAM_V1_6_Program_Name Source # | |
Defined in Data.SAM.Version1_6.Header.PG type Rep SAM_V1_6_Program_Name :: Type -> Type # | |
Show SAM_V1_6_Program_Name Source # | |
Defined in Data.SAM.Version1_6.Header.PG showsPrec :: Int -> SAM_V1_6_Program_Name -> ShowS # show :: SAM_V1_6_Program_Name -> String # showList :: [SAM_V1_6_Program_Name] -> ShowS # | |
Eq SAM_V1_6_Program_Name Source # | |
Defined in Data.SAM.Version1_6.Header.PG (==) :: SAM_V1_6_Program_Name -> SAM_V1_6_Program_Name -> Bool # (/=) :: SAM_V1_6_Program_Name -> SAM_V1_6_Program_Name -> Bool # | |
type Rep SAM_V1_6_Program_Name Source # | |
Defined in Data.SAM.Version1_6.Header.PG type Rep SAM_V1_6_Program_Name = D1 ('MetaData "SAM_V1_6_Program_Name" "Data.SAM.Version1_6.Header.PG" "hs-samtools-0.6.0.0-inplace" 'True) (C1 ('MetaCons "SAM_V1_6_Program_Name" 'PrefixI 'True) (S1 ('MetaSel ('Just "sam_v1_6_program_name_value") 'NoSourceUnpackedness 'NoSourceStrictness 'DecidedLazy) (Rec0 ByteString))) |
newtype SAM_V1_6_Program_Command_Line Source #
CL tag for SAM_V1_6_Program
.
Instances
Generic SAM_V1_6_Program_Command_Line Source # | |
Defined in Data.SAM.Version1_6.Header.PG type Rep SAM_V1_6_Program_Command_Line :: Type -> Type # | |
Show SAM_V1_6_Program_Command_Line Source # | |
Defined in Data.SAM.Version1_6.Header.PG showsPrec :: Int -> SAM_V1_6_Program_Command_Line -> ShowS # show :: SAM_V1_6_Program_Command_Line -> String # showList :: [SAM_V1_6_Program_Command_Line] -> ShowS # | |
Eq SAM_V1_6_Program_Command_Line Source # | |
type Rep SAM_V1_6_Program_Command_Line Source # | |
Defined in Data.SAM.Version1_6.Header.PG type Rep SAM_V1_6_Program_Command_Line = D1 ('MetaData "SAM_V1_6_Program_Command_Line" "Data.SAM.Version1_6.Header.PG" "hs-samtools-0.6.0.0-inplace" 'True) (C1 ('MetaCons "SAM_V1_6_Program_Command_Line" 'PrefixI 'True) (S1 ('MetaSel ('Just "sam_v1_6_program_command_line_value") 'NoSourceUnpackedness 'NoSourceStrictness 'DecidedLazy) (Rec0 ByteString))) |
newtype SAM_V1_6_Program_Previous_PG_ID Source #
PP tag for SAM_V1_6_Program
.
Instances
Generic SAM_V1_6_Program_Previous_PG_ID Source # | |
Show SAM_V1_6_Program_Previous_PG_ID Source # | |
Defined in Data.SAM.Version1_6.Header.PG | |
Eq SAM_V1_6_Program_Previous_PG_ID Source # | |
type Rep SAM_V1_6_Program_Previous_PG_ID Source # | |
Defined in Data.SAM.Version1_6.Header.PG type Rep SAM_V1_6_Program_Previous_PG_ID = D1 ('MetaData "SAM_V1_6_Program_Previous_PG_ID" "Data.SAM.Version1_6.Header.PG" "hs-samtools-0.6.0.0-inplace" 'True) (C1 ('MetaCons "SAM_V1_6_Program_Previous_PG_ID" 'PrefixI 'True) (S1 ('MetaSel ('Just "sam_v1_6_program_previous_pg_id_value") 'NoSourceUnpackedness 'NoSourceStrictness 'DecidedLazy) (Rec0 ByteString))) |
newtype SAM_V1_6_Program_Description Source #
DS tag for SAM_V1_6_Program
.
Instances
Generic SAM_V1_6_Program_Description Source # | |
Defined in Data.SAM.Version1_6.Header.PG type Rep SAM_V1_6_Program_Description :: Type -> Type # | |
Show SAM_V1_6_Program_Description Source # | |
Defined in Data.SAM.Version1_6.Header.PG showsPrec :: Int -> SAM_V1_6_Program_Description -> ShowS # show :: SAM_V1_6_Program_Description -> String # showList :: [SAM_V1_6_Program_Description] -> ShowS # | |
Eq SAM_V1_6_Program_Description Source # | |
type Rep SAM_V1_6_Program_Description Source # | |
Defined in Data.SAM.Version1_6.Header.PG type Rep SAM_V1_6_Program_Description = D1 ('MetaData "SAM_V1_6_Program_Description" "Data.SAM.Version1_6.Header.PG" "hs-samtools-0.6.0.0-inplace" 'True) (C1 ('MetaCons "SAM_V1_6_Program_Description" 'PrefixI 'True) (S1 ('MetaSel ('Just "sam_v1_6_program_description_value") 'NoSourceUnpackedness 'NoSourceStrictness 'DecidedLazy) (Rec0 ByteString))) |
newtype SAM_V1_6_Program_Version Source #
VN tag for SAM_V1_6_Program
.
Instances
Generic SAM_V1_6_Program_Version Source # | |
Defined in Data.SAM.Version1_6.Header.PG type Rep SAM_V1_6_Program_Version :: Type -> Type # | |
Show SAM_V1_6_Program_Version Source # | |
Defined in Data.SAM.Version1_6.Header.PG showsPrec :: Int -> SAM_V1_6_Program_Version -> ShowS # show :: SAM_V1_6_Program_Version -> String # showList :: [SAM_V1_6_Program_Version] -> ShowS # | |
Eq SAM_V1_6_Program_Version Source # | |
Defined in Data.SAM.Version1_6.Header.PG | |
type Rep SAM_V1_6_Program_Version Source # | |
Defined in Data.SAM.Version1_6.Header.PG type Rep SAM_V1_6_Program_Version = D1 ('MetaData "SAM_V1_6_Program_Version" "Data.SAM.Version1_6.Header.PG" "hs-samtools-0.6.0.0-inplace" 'True) (C1 ('MetaCons "SAM_V1_6_Program_Version" 'PrefixI 'True) (S1 ('MetaSel ('Just "sam_v1_6_program_version_value") 'NoSourceUnpackedness 'NoSourceStrictness 'DecidedLazy) (Rec0 ByteString))) |