{ "_id": "6ab8d5f199f7aa8c6aa37386", "Package": "GDSAnnotator", "Type": "Package", "Title": "Whole-genome variant annotation data manipulation using GDS\nfiles", "Version": "0.99.1", "Authors@R": "c(person(\"Xiuwen\", \"Zheng\", role=c(\"aut\", \"cre\"),\nemail=\"xiuwen.zheng@abbvie.com\",\ncomment=c(ORCID=\"0000-0002-1390-0708\")),\nperson(\"Yuantao (Raven)\", \"Chen\", role=\"ctb\"),\nperson(\"Hufeng\", \"Zhou\", role=\"ctb\", email=\"hufengzhou@g.harvard.edu\"))", "Description": "Fast and memory-efficient manipulation of whole-genome\nvariant annotation data stored in Genomic Data Structure (GDS)\nfiles. The annotated GDS (aGDS) format introduced by FAVOR\nstores the FAVOR annotations of the variants together with the\ngenotypes in one SeqArray GDS file. This package generalizes\nthe format to annotation GDS files of any source, with or\nwithout genotypes. Annotation resources and annotator outputs,\nincluding FAVOR, gnomAD, Ensembl VEP and SnpEff, are converted\ninto compact SeqArray-compatible GDS files with random access.\nVariants can be given as chr-pos-ref-alt strings, data frames,\nGRanges objects, VCF files or objects, or SeqArray GDS files.\nThey are annotated by querying the annotation files, and the\nannotations can be written back into a genotype GDS file.\nSummary statistics of the variants and their annotations are\ncomputed in a single pass over a file and rendered as a\nVEP/SnpEff-like report. The package is intended for large-scale\nwhole-genome sequencing studies.", "License": "GPL-3", "URL": "https://github.com/zhengxwen/GDSAnnotator", "BugReports": "https://github.com/zhengxwen/GDSAnnotator/issues", "VignetteBuilder": "knitr", "Encoding": "UTF-8", "ByteCompile": "TRUE", "biocViews": "Infrastructure, DataRepresentation, DataImport, Sequencing,\nWholeGenome, Genetics, Annotation, VariantAnnotation,\nGenomeAnnotation, GenomicVariation", "Config/pak/sysreqs": "zlib1g-dev", "Repository": "https://biocstaging.r-universe.dev", "Date/Publication": "2026-09-27 03:30:01 UTC", "RemoteUrl": "https://github.com/BiocStaging/GDSAnnotator", "RemoteRef": "HEAD", "RemoteSha": "f37e87d74b0a005e2b8d261fe533927fdd8ea359", "NeedsCompilation": "no", "Packaged": { "Date": "2026-09-27 08:29:14 UTC", "User": "root" }, "Author": "Xiuwen Zheng [aut, cre] (ORCID:\n),\nYuantao (Raven) Chen [ctb],\nHufeng Zhou [ctb]", "Maintainer": "Xiuwen Zheng ", "_user": "biocstaging", "_type": "src", "_file": 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