SeqVarTools

DOI: 10.18129/B9.bioc.SeqVarTools    

This package is for version 3.7 of Bioconductor; for the stable, up-to-date release version, see SeqVarTools.

Tools for variant data

Bioconductor version: 3.7

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 uw.edu>

Installation

To install this package, start R and enter:

## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("SeqVarTools")

Documentation

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

browseVignettes("SeqVarTools")

 

PDF	R Script	Introduction to SeqVarTools
PDF		Reference Manual
Text		NEWS

Details

biocViews	GeneticVariability, Genetics, SNP, Sequencing, Software
Version	1.18.0
In Bioconductor since	BioC 2.13 (R-3.0) (5 years)
License	GPL-3
Depends	SeqArray
Imports	grDevices, graphics, stats, methods, Biobase, gdsfmt, GenomicRanges, IRanges, S4Vectors, GWASExactHW, logistf, Matrix, dplyr, tidyr
LinkingTo
Suggests	BiocGenerics, BiocStyle, RUnit, stringr
SystemRequirements
Enhances
URL
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_1.18.0.tar.gz
Windows Binary	SeqVarTools_1.18.0.zip
Mac OS X 10.11 (El Capitan)	SeqVarTools_1.18.0.tgz
Source Repository	git clone https://git.bioconductor.org/packages/SeqVarTools
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/SeqVarTools
Package Short Url	http://bioconductor.org/packages/SeqVarTools/
Package Downloads Report	Download Stats