To install this package, start R and enter:

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

In most cases, you don't need to download the package archive at all.

genotypeeval

 

QA/QC of a gVCF or VCF file

Bioconductor version: Release (3.5)

Takes in a gVCF or VCF and reports metrics to assess quality of calls.

Author: Jennifer Tom [aut, cre]

Maintainer: Jennifer Tom <tom.jennifer at gene.com>

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

Installation

To install this package, start R and enter:

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

Documentation

HTML genotypeeval_vignette.html
PDF   Reference Manual
Text   NEWS
Text   LICENSE

Details

biocViews BatchEffect, DataImport, Genetics, SNP, Sequencing, Software, VariantAnnotation
Version 1.8.0
In Bioconductor since BioC 3.2 (R-3.2) (2 years)
License file LICENSE
Depends R (>= 3.3.0), VariantAnnotation
Imports ggplot2, rtracklayer, BiocGenerics, GenomicRanges, GenomeInfoDb, IRanges, methods, BiocParallel, Rtsne, graphics, stats
LinkingTo
Suggests rmarkdown, testthat, SNPlocs.Hsapiens.dbSNP141.GRCh38, TxDb.Hsapiens.UCSC.hg38.knownGene
SystemRequirements
Enhances
URL
Depends On Me
Imports Me
Suggests Me
Build Report  

Package Archives

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

Package Source genotypeeval_1.8.0.tar.gz
Windows Binary genotypeeval_1.8.0.zip
Mac OS X 10.11 (El Capitan) genotypeeval_1.8.0.tgz
Subversion source (username/password: readonly)
Git source https://github.com/Bioconductor-mirror/genotypeeval/tree/release-3.5
Package Short Url http://bioconductor.org/packages/genotypeeval/
Package Downloads Report Download Stats

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