liftOver
This package is for version 3.16 of Bioconductor; for the stable, up-to-date release version, see liftOver.
Changing genomic coordinate systems with rtracklayer::liftOver
Bioconductor version: 3.16
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>
citation("liftOver")):
Installation
To install this package, start R (version "4.2") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("liftOver")
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("liftOver")| Changing genomic coordinate systems with rtracklayer::liftOver | HTML | R Script |
Details
| biocViews | BasicWorkflow, Workflow |
| Version | 1.22.0 |
| License | Artistic-2.0 |
| Depends | R (>= 3.3.0), gwascat, GenomicRanges, rtracklayer, Homo.sapiens, BiocGenerics |
| Imports | |
| System Requirements | |
| URL | https://www.bioconductor.org/help/workflows/liftOver/ |
See More
| Suggests | knitr, rmarkdown, BiocStyle |
| Linking To | |
| Enhances | |
| Depends On Me | |
| Imports Me | |
| Suggests Me | |
| Links To Me |
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | liftOver_1.22.0.tar.gz |
| Windows Binary | |
| macOS Binary (x86_64) | |
| macOS Binary (arm64) | |
| Source Repository | git clone https://git.bioconductor.org/packages/liftOver |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/liftOver |
| Package Short Url | https://bioconductor.org/packages/liftOver/ |
| Package Downloads Report | Download Stats |