| Copyright | (c) Matthew Mosior 2023 |
|---|---|
| License | BSD-style |
| Maintainer | mattm.github@gmail.com |
| Portability | portable |
| Safe Haskell | Safe-Inferred |
| Language | Haskell2010 |
Data.SAM.Version1_6.Alignment.Base
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
- data SAM_V1_6_Alignment = SAM_V1_6_Alignment {
- sam_v1_6_alignment_qname :: ByteString
- sam_v1_6_alignment_flag :: Int
- sam_v1_6_alignment_rname :: ByteString
- sam_v1_6_alignment_pos :: Integer
- sam_v1_6_alignment_mapq :: Int
- sam_v1_6_alignment_cigar :: ByteString
- sam_v1_6_alignment_rnext :: ByteString
- sam_v1_6_alignment_pnext :: Integer
- sam_v1_6_alignment_tlen :: Integer
- sam_v1_6_alignment_seq :: ByteString
- sam_v1_6_alignment_qual :: ByteString
- sam_v1_6_alignment_aopt :: Maybe ByteString
- sam_v1_6_alignment_iopt :: Maybe Integer
- sam_v1_6_alignment_fopt :: Maybe Float
- sam_v1_6_alignment_zopt :: Maybe ByteString
- sam_v1_6_alignment_hopt :: Maybe (Seq Word8)
- sam_v1_6_alignment_bopt :: Maybe SAM_V1_6_Alignment_BOPT
SAM version 1.6 alignment mandatory and optional data types
data SAM_V1_6_Alignment Source #
Custom SAM (version 1.6) SAM_V1_6_Alignment data type.
See section 1.4 and 1.5 of the SAM v1.6 specification documentation.
Constructors