DOI: 10.18129/B9.bioc.SeqVarTools    

This package is for version 3.8 of Bioconductor; for the stable, up-to-date release version, see SeqVarTools.

Tools for variant data

Bioconductor version: 3.8

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 at>

Citation (from within R, enter citation("SeqVarTools")):


To install this package, start R (version "3.5") and enter:

if (!requireNamespace("BiocManager", quietly = TRUE))

For older versions of R, please refer to the appropriate Bioconductor release.


To view documentation for the version of this package installed in your system, start R and enter:



PDF R Script Introduction to SeqVarTools
PDF   Reference Manual
Text   NEWS


biocViews GeneticVariability, Genetics, SNP, Sequencing, Software
Version 1.20.2
In Bioconductor since BioC 2.13 (R-3.0) (5.5 years)
License GPL-3
Depends SeqArray
Imports grDevices, graphics, stats, methods, Biobase, gdsfmt, GenomicRanges, IRanges, S4Vectors, GWASExactHW, logistf, Matrix, dplyr, rlang, tidyr
Suggests BiocGenerics, BiocStyle, RUnit, stringr
Depends On Me
Imports Me GENESIS
Suggests Me
Links To Me
Build Report  

Package Archives

Follow Installation instructions to use this package in your R session.

Source Package SeqVarTools_1.20.2.tar.gz
Windows Binary (32- & 64-bit)
Mac OS X 10.11 (El Capitan) SeqVarTools_1.20.2.tgz
Source Repository git clone
Source Repository (Developer Access) git clone
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