Workflow Package: liftOver

Changing genomic coordinate systems with rtracklayer::liftOver

Bioconductor version: 3.7

The liftOver facilities developed in conjunction with the UCSC browser track infrastructure are available for transforming data in GRanges formats. This is illustrated here with an image of the EBI/NHGRI GWAS catalog that is, as of May 10 2017, distributed with coordinates defined by NCBI build hg38.

Author: Bioconductor Package Maintainer [aut, cre]

Maintainer: Bioconductor Package Maintainer <maintainer at bioconductor.org>

Installation

To install this package, start R and enter:

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

Documentation

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

browseVignettes("liftOver")

 

HTML

R Script

Changing genomic coordinate systems with rtracklayer::liftOver

Details

biocViews	BasicWorkflow, Workflow
Version	1.2.0
License	Artistic-2.0
Depends	R (>= 3.3.0), gwascat, GenomicRanges, rtracklayer, Homo.sapiens, BiocGenerics
Imports
LinkingTo
Suggests	knitr, rmarkdown, BiocStyle
SystemRequirements
Enhances
URL	https://www.bioconductor.org/help/workflows/liftOver/
Depends On Me
Imports Me
Suggests Me
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Build Report