Package: SeqVarTools
Version: 1.36.0
Type: Package
Title: Tools for variant data
Description: An interface to the fast-access storage format for VCF
        data provided in SeqArray, with tools for common operations and
        analysis.
Author: Stephanie M. Gogarten, Xiuwen Zheng, Adrienne Stilp
Maintainer: Stephanie M. Gogarten <sdmorris@uw.edu>
Depends: SeqArray
Imports: grDevices, graphics, stats, methods,
	 Biobase, BiocGenerics, gdsfmt, GenomicRanges, IRanges, S4Vectors,
	 GWASExactHW, logistf, Matrix, data.table,
Suggests: BiocStyle, RUnit, stringr
License: GPL-3
URL: https://github.com/smgogarten/SeqVarTools
LazyData: yes
biocViews: SNP, GeneticVariability, Sequencing, Genetics
Collate: 
  AllClasses.R
  AllGenerics.R
  AllUtilities.R
  Methods-SeqVarGDSClass.R
  Methods-SeqVarData.R
  Methods-Iterator.R
  chromWithPAR.R
  duplicateDiscordance.R
  hwe.R
  inbreedCoeff.R
  mendelErr.R
  pca.R
  setVariantID.R
  alternateAlleleDetection.R
  refFrac.R
  regression.R