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# CITATION.cff file created with {cffr} R package
# See also: https://docs.ropensci.org/cffr/
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cff-version: 1.2.0
message: 'To cite package "GDSAnnotator" in publications use:'
type: software
license: GPL-3.0-only
title: 'GDSAnnotator: Whole-genome variant annotation data manipulation using GDS
  files'
version: 0.99.1
abstract: Fast and memory-efficient manipulation of whole-genome variant annotation
  data stored in Genomic Data Structure (GDS) files. The annotated GDS (aGDS) format
  introduced by FAVOR stores the FAVOR annotations of the variants together with the
  genotypes in one SeqArray GDS file. This package generalizes the format to annotation
  GDS files of any source, with or without genotypes. Annotation resources and annotator
  outputs, including FAVOR, gnomAD, Ensembl VEP and SnpEff, are converted into compact
  SeqArray-compatible GDS files with random access. Variants can be given as chr-pos-ref-alt
  strings, data frames, GRanges objects, VCF files or objects, or SeqArray GDS files.
  They are annotated by querying the annotation files, and the annotations can be
  written back into a genotype GDS file. Summary statistics of the variants and their
  annotations are computed in a single pass over a file and rendered as a VEP/SnpEff-like
  report. The package is intended for large-scale whole-genome sequencing studies.
authors:
- family-names: Zheng
  given-names: Xiuwen
  email: xiuwen.zheng@abbvie.com
  orcid: https://orcid.org/0000-0002-1390-0708
repository: https://biocstaging.r-universe.dev
repository-code: https://github.com/zhengxwen/GDSAnnotator
commit: f37e87d74b0a005e2b8d261fe533927fdd8ea359
url: https://github.com/zhengxwen/GDSAnnotator
date-released: '2026-09-27'
contact:
- family-names: Zheng
  given-names: Xiuwen
  email: xiuwen.zheng@abbvie.com
  orcid: https://orcid.org/0000-0002-1390-0708