hs-samtools: Read and write SAM, BAM, and CRAM files.
A SAM, BAM, and CRAM file decoder/encoded along with various related functionality associated with these file formats.
Modules
[Index] [Quick Jump]
- Data
- BAM
- Version1_6
- Data.BAM.Version1_6.BAM
- Data.BAM.Version1_6.BAM.Alignment
- Data.BAM.Version1_6.BAM.Alignment.Base
- OptionalFields
- Data.BAM.Version1_6.BAM.Alignment.OptionalFields.AOPT
- Data.BAM.Version1_6.BAM.Alignment.OptionalFields.BOPT
- Data.BAM.Version1_6.BAM.Alignment.OptionalFields.Base
- Data.BAM.Version1_6.BAM.Alignment.OptionalFields.BigCOPT
- Data.BAM.Version1_6.BAM.Alignment.OptionalFields.BigIOPT
- Data.BAM.Version1_6.BAM.Alignment.OptionalFields.BigSOPT
- Data.BAM.Version1_6.BAM.Alignment.OptionalFields.FOPT
- Data.BAM.Version1_6.BAM.Alignment.OptionalFields.HOPT
- Data.BAM.Version1_6.BAM.Alignment.OptionalFields.SmallCOPT
- Data.BAM.Version1_6.BAM.Alignment.OptionalFields.SmallIOPT
- Data.BAM.Version1_6.BAM.Alignment.OptionalFields.SmallSOPT
- Data.BAM.Version1_6.BAM.Alignment.OptionalFields.ZOPT
- Data.BAM.Version1_6.BAM.BAMAlignments
- Data.BAM.Version1_6.BAM.BAMHeader
- Data.BAM.Version1_6.BAM.Header
- Data.BAM.Version1_6.BAM.ReferenceInformation
- Data.BAM.Version1_6.BAM.Alignment
- Data.BAM.Version1_6.BGZFBlock
- Data.BAM.Version1_6.Base
- Data.BAM.Version1_6.GZipHeader
- Read
- Data.BAM.Version1_6.Read.Base
- Data.BAM.Version1_6.Read.Error
- Parser
- BAM
- Alignment
- Data.BAM.Version1_6.Read.Parser.BAM.Alignment.Base
- OptionalFields
- Data.BAM.Version1_6.Read.Parser.BAM.Alignment.OptionalFields.AOPT
- Data.BAM.Version1_6.Read.Parser.BAM.Alignment.OptionalFields.BOPT
- Data.BAM.Version1_6.Read.Parser.BAM.Alignment.OptionalFields.BigCOPT
- Data.BAM.Version1_6.Read.Parser.BAM.Alignment.OptionalFields.BigIOPT
- Data.BAM.Version1_6.Read.Parser.BAM.Alignment.OptionalFields.BigSOPT
- Data.BAM.Version1_6.Read.Parser.BAM.Alignment.OptionalFields.FOPT
- Data.BAM.Version1_6.Read.Parser.BAM.Alignment.OptionalFields.HOPT
- Data.BAM.Version1_6.Read.Parser.BAM.Alignment.OptionalFields.SmallCOPT
- Data.BAM.Version1_6.Read.Parser.BAM.Alignment.OptionalFields.SmallIOPT
- Data.BAM.Version1_6.Read.Parser.BAM.Alignment.OptionalFields.SmallSOPT
- Data.BAM.Version1_6.Read.Parser.BAM.Alignment.OptionalFields.ZOPT
- Data.BAM.Version1_6.Read.Parser.BAM.BAMAlignments
- Data.BAM.Version1_6.Read.Parser.BAM.BAMHeader
- Data.BAM.Version1_6.Read.Parser.BAM.Base
- ReferenceInformation
- Alignment
- Data.BAM.Version1_6.Read.Parser.BGZFBlock
- BAM
- Write
- Data.BAM.Version1_6.BAM
- Version1_6
- SAM
- Version1_6
- Data.SAM.Version1_6.Alignment
- Data.SAM.Version1_6.Alignment.Base
- OptionalFields
- Data.SAM.Version1_6.Alignment.OptionalFields.AOPT
- Data.SAM.Version1_6.Alignment.OptionalFields.BOPT
- Data.SAM.Version1_6.Alignment.OptionalFields.Base
- Data.SAM.Version1_6.Alignment.OptionalFields.FOPT
- Data.SAM.Version1_6.Alignment.OptionalFields.HOPT
- Data.SAM.Version1_6.Alignment.OptionalFields.IOPT
- Data.SAM.Version1_6.Alignment.OptionalFields.ZOPT
- Data.SAM.Version1_6.Base
- Data.SAM.Version1_6.Header
- Read
- Data.SAM.Version1_6.Read.Base
- Data.SAM.Version1_6.Read.Error
- Parser
- Alignment
- Data.SAM.Version1_6.Read.Parser.Alignment.Base
- OptionalFields
- Data.SAM.Version1_6.Read.Parser.Alignment.OptionalFields.AOPT
- Data.SAM.Version1_6.Read.Parser.Alignment.OptionalFields.BOPT
- Data.SAM.Version1_6.Read.Parser.Alignment.OptionalFields.FOPT
- Data.SAM.Version1_6.Read.Parser.Alignment.OptionalFields.HOPT
- Data.SAM.Version1_6.Read.Parser.Alignment.OptionalFields.IOPT
- Data.SAM.Version1_6.Read.Parser.Alignment.OptionalFields.ZOPT
- Header
- CO
- HD
- PG
- Data.SAM.Version1_6.Read.Parser.Header.PG.Base
- Data.SAM.Version1_6.Read.Parser.Header.PG.CL
- Data.SAM.Version1_6.Read.Parser.Header.PG.DS
- Data.SAM.Version1_6.Read.Parser.Header.PG.ID
- Data.SAM.Version1_6.Read.Parser.Header.PG.PN
- Data.SAM.Version1_6.Read.Parser.Header.PG.PP
- Data.SAM.Version1_6.Read.Parser.Header.PG.VN
- RG
- Data.SAM.Version1_6.Read.Parser.Header.RG.BC
- Data.SAM.Version1_6.Read.Parser.Header.RG.Base
- Data.SAM.Version1_6.Read.Parser.Header.RG.CN
- Data.SAM.Version1_6.Read.Parser.Header.RG.DS
- Data.SAM.Version1_6.Read.Parser.Header.RG.DT
- Data.SAM.Version1_6.Read.Parser.Header.RG.FO
- Data.SAM.Version1_6.Read.Parser.Header.RG.ID
- Data.SAM.Version1_6.Read.Parser.Header.RG.KS
- Data.SAM.Version1_6.Read.Parser.Header.RG.LB
- Data.SAM.Version1_6.Read.Parser.Header.RG.PG
- Data.SAM.Version1_6.Read.Parser.Header.RG.PI
- Data.SAM.Version1_6.Read.Parser.Header.RG.PL
- Data.SAM.Version1_6.Read.Parser.Header.RG.PM
- Data.SAM.Version1_6.Read.Parser.Header.RG.PU
- Data.SAM.Version1_6.Read.Parser.Header.RG.SM
- SQ
- Data.SAM.Version1_6.Read.Parser.Header.SQ.AH
- Data.SAM.Version1_6.Read.Parser.Header.SQ.AN
- Data.SAM.Version1_6.Read.Parser.Header.SQ.AS
- Data.SAM.Version1_6.Read.Parser.Header.SQ.Base
- Data.SAM.Version1_6.Read.Parser.Header.SQ.DS
- Data.SAM.Version1_6.Read.Parser.Header.SQ.LN
- Data.SAM.Version1_6.Read.Parser.Header.SQ.M5
- Data.SAM.Version1_6.Read.Parser.Header.SQ.SN
- Data.SAM.Version1_6.Read.Parser.Header.SQ.SP
- Data.SAM.Version1_6.Read.Parser.Header.SQ.TP
- Data.SAM.Version1_6.Read.Parser.Header.SQ.UR
- Alignment
- Write
- Data.SAM.Version1_6.Alignment
- Version1_6
- BAM
Downloads
- hs-samtools-0.10.0.3.tar.gz [browse] (Cabal source package)
- Package description (as included in the package)
Versions [RSS] | 0.5.0.2, 0.5.0.3, 0.6.0.0, 0.6.0.1, 0.7.0.0, 0.8.0.0, 0.9.0.0, 0.10.0.0, 0.10.0.1, 0.10.0.2, 0.10.0.3 (info) |
---|---|
Change log | CHANGELOG.md |
Dependencies | array (>=0.5.6 && <0.6), ascii (>=1.7.0 && <1.8), attoparsec (>=0.14.4 && <0.15), base (>=4.18.2 && <4.19), base16 (>=1.0 && <1.1), binary (>=0.8.9 && <0.9), bitvec (>=1.1.5 && <1.2), bytestring (>=0.11.5 && <0.12), containers (>=0.6.7 && <0.7), crypton (>=1.0.0 && <1.1), deepseq (>=1.4.8 && <1.5), digest (>=0.0.2 && <0.1), generic-deriving (>=1.14.5 && <1.15), mason (>=0.2.6 && <0.3), parser-combinators (>=1.3.0 && <1.4), parsers (>=0.12.11 && <0.13), pcre-heavy (>=1.0.0 && <1.1), regex-tdfa (>=1.3.2 && <1.4), streamly (>=0.10.0 && <0.11), streamly-bytestring (>=0.2.1 && <0.3), streamly-core (>=0.2.1 && <0.3), zlib (>=0.7.1 && <0.8) [details] |
License | BSD-3-Clause |
Author | Matthew Mosior |
Maintainer | mattm.github@gmail.com |
Category | Bioinformatics |
Home page | https://github.com/Matthew-Mosior/hs-samtools |
Bug tracker | https://github.com/Matthew-Mosior/hs-samtools/issues |
Uploaded | by MatthewMosior at 2024-07-15T21:32:00Z |
Distributions | |
Downloads | 313 total (12 in the last 30 days) |
Rating | (no votes yet) [estimated by Bayesian average] |
Your Rating | |
Status | Docs uploaded by user Build status unknown [no reports yet] |