GoogleGenomics

DOI: 10.18129/B9.bioc.GoogleGenomics    

This package is deprecated. It will probably be removed from Bioconductor. Please refer to the package end-of-life guidelines for more information.

This package is for version 3.8 of Bioconductor. This package has been removed from Bioconductor. For the last stable, up-to-date release version, see GoogleGenomics.

R Client for Google Genomics API

Bioconductor version: 3.8

Provides an R package to interact with the Google Genomics API.

Author: Cassie Doll, Nicole Deflaux

Maintainer: Siddhartha Bagaria <bagaria.siddhartha at gmail.com>

Installation

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

if (!requireNamespace("BiocManager", quietly = TRUE))
    install.packages("BiocManager")
BiocManager::install("GoogleGenomics")

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

Documentation

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

browseVignettes("GoogleGenomics")

 

HTML	R Script	Annotating Variants
HTML	R Script	Plotting Alignments
HTML	R Script	Reproducing Variant Annotation Results
PDF		Reference Manual
Text		NEWS
Text		LICENSE

Details

biocViews	DataImport, Genetics, Software, ThirdPartyClient
Version	2.4.0
In Bioconductor since	BioC 3.1 (R-3.2) (4 years)
License	Apache License (== 2.0) | file LICENSE
Depends	R (>= 3.1.0), GenomicAlignments(>= 1.0.1), VariantAnnotation
Imports	Biostrings, GenomeInfoDb, GenomicRanges, IRanges, httr, rjson, Rsamtools, S4Vectors(>= 0.9.25), Biobase, methods, utils
LinkingTo
Suggests	BiocStyle, RProtoBuf, httpuv, knitr, rmarkdown, testthat, ggbio, ggplot2, BSgenome.Hsapiens.UCSC.hg19, org.Hs.eg.db, TxDb.Hsapiens.UCSC.hg19.knownGene
SystemRequirements	GNU make
Enhances
URL	https://cloud.google.com/genomics/
BugReports	https://github.com/Bioconductor/GoogleGenomics/issues
Depends On Me
Imports Me
Suggests Me
Links To Me
Build Report

Package Archives

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

Source Package	GoogleGenomics_2.4.0.tar.gz
Windows Binary	GoogleGenomics_2.4.0.zip (32- & 64-bit)
Mac OS X 10.11 (El Capitan)	GoogleGenomics_2.4.0.tgz
Source Repository	git clone https://git.bioconductor.org/packages/GoogleGenomics
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/GoogleGenomics
Package Short Url	http://bioconductor.org/packages/GoogleGenomics/
Package Downloads Report	Download Stats