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This is the development version of SeqVarTools; for the stable release version, see SeqVarTools.

Tools for variant data

Bioconductor version: Development (3.20)

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 "4.4") and enter:

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

# The following initializes usage of Bioc devel


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:

Introduction to SeqVarTools PDF R Script
Iterators in SeqVarTools PDF R Script
Reference Manual PDF


biocViews GeneticVariability, Genetics, SNP, Sequencing, Software
Version 1.43.0
In Bioconductor since BioC 2.13 (R-3.0) (11 years)
License GPL-3
Depends SeqArray
Imports grDevices, graphics, stats, methods, Biobase, BiocGenerics, gdsfmt, GenomicRanges, IRanges, S4Vectors, GWASExactHW, logistf, Matrix, data.table
System Requirements
See More
Suggests BiocStyle, RUnit, stringr
Linking To
Depends On Me
Imports Me GENESIS
Suggests Me GMMAT, MAGEE
Links To Me
Build Report Build Report

Package Archives

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

Source Package SeqVarTools_1.43.0.tar.gz
Windows Binary
macOS Binary (x86_64) SeqVarTools_1.43.0.tgz
macOS Binary (arm64) SeqVarTools_1.43.0.tgz
Source Repository git clone
Source Repository (Developer Access) git clone
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