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Rduckhts: 'DuckDB' High Throughput Sequencing File Formats Reader Extension
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>.
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| 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@gmail.com> |
| License | GPL (>= 2) |
| Version | 2.0.1.0.1.0 |
| URL | https://github.com/RGenomicsETL/duckhts https://rgenomicsetl.r-universe.dev/Rduckhts |
| Package repository | View on CRAN |
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