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Bundles the 'duckhts' 'DuckDB' extension for reading High Throughput Sequencing file formats with 'DuckDB'. The 'DuckDB' C extension API <https://duckdb.org/docs/stable/clients/c/api> and its 'htslib' dependency are compiled from vendored sources during package installation. James K Bonfield and co-authors (2021) <doi:10.1093/gigascience/giab007>. VariantKey / RegionKey support follows Nicola Asuni (2018) <doi:10.1101/473744>.
| Version: | 2.0.1.0.1.0 |
| Depends: | R (≥ 4.4.0) |
| Imports: | DBI, duckdb (≥ 1.5.0), methods, utils |
| Suggests: | Rtinycc, tinytest |
| Published: | 2026-10-24 |
| DOI: | 10.32614/CRAN.package.Rduckhts |
| Author: | Sounkou Mahamane Toure [aut, cre], Ryan Ward [aut] (GenBank reader and FASTA converter), Nurture Bio [cph] (GenBank reader and FASTA converter), James K Bonfield, John Marshall,Petr Danecek ,Heng Li , Valeriu Ohan, Andrew Whitwham,Thomas Keane , Robert M Davies [ctb] (Htslib Authors), DuckHTS Contributors [cph] (DuckHTS DuckDB extension (MIT)), RBCFTools Authors [cph] (Copyright notice in bcf_reader.c), Genome Research Ltd [cph] (HTSlib, htscodecs and the bcftools filter engine (Petr Danecek)), Broad Institute [cph] (Portions of HTSlib), Massachusetts Institute of Technology [cph] (Portions of HTSlib), Medical Research Council [cph] (Portions of HTSlib CRAM code), Attractive Chaos [cph] (khash, kseq and related HTSlib and cgranges headers), Dana-Farber Cancer Institute [cph] (cgranges), Brent Pedersen [cph] (Original author of mosdepth and Somalier), Giulio Genovese [cph] (Author of BCFTools munge,score,liftover plugins), GENOMICS plc [cph] (VariantKey and RegionKey C API), Nicola Asuni [cph] (Author of the VariantKey and RegionKey C API), Devon Ryan [cph] (Author of libBigWig), Stichting DuckDB Foundation [cph] (DuckDB C extension API headers) |
| Maintainer: | Sounkou Mahamane Toure <sounkoutoure at gmail.com> |
| BugReports: | https://github.com/RGenomicsETL/duckhts/issues |
| License: | GPL-2 | GPL-3 [expanded from: GPL (≥ 2)] |
| Copyright: | See inst/COPYRIGHT |
| URL: | https://github.com/RGenomicsETL/duckhts, https://rgenomicsetl.r-universe.dev/Rduckhts |
| NeedsCompilation: | yes |
| SystemRequirements: | GNU make, cmake, zlib, libbz2, liblzma, libcurl, openssl (development headers) |
| Materials: | NEWS |
| CRAN checks: | Rduckhts results |
| Reference manual: | Rduckhts.html , Rduckhts.pdf |
| Package source: | Rduckhts_2.0.1.0.1.0.tar.gz |
| Windows binaries: | r-devel: Rduckhts_2.0.1.0.1.0.zip, r-release: Rduckhts_2.0.1.0.1.0.zip, r-oldrel: Rduckhts_2.0.0.0.1.9.zip |
| macOS binaries: | r-release (arm64): Rduckhts_2.0.1.0.1.0.tgz, r-oldrel (arm64): Rduckhts_2.0.1.0.1.0.tgz, r-release (x86_64): Rduckhts_2.0.1.0.1.0.tgz, r-oldrel (x86_64): Rduckhts_2.0.1.0.1.0.tgz |
| Old sources: | Rduckhts archive |
Please use the canonical form https://CRAN.R-project.org/package=Rduckhts to link to this page.
These binaries (installable software) and packages are in development.
They may not be fully stable and should be used with caution. We make no claims about them.