PlinkMatrix
This is the development version of PlinkMatrix; to use it, please install the devel version of Bioconductor.
DelayedArray interface for plink bed files
Bioconductor version: Development (3.23)
This package provides a DelayedArray interface for plink bed files. There is support for interfacing to plink genotype data via RangedSummarizedExperiment. Example data from the GEUVADIS project (internationalgenome.org) are used for demonstration.
Author: Vince Carey [aut, cre]
, NHGRI U24HG004059 [fnd]
Maintainer: Vince Carey <stvjc at channing.harvard.edu>
citation("PlinkMatrix")):
Installation
To install this package, start R (version "4.6") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
# The following initializes usage of Bioc devel
BiocManager::install(version='devel')
BiocManager::install("PlinkMatrix")
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("PlinkMatrix")| PlinkMatrix: DelayedArray interface to plink bed-type files | HTML | R Script |
| Reference Manual |
Details
| biocViews | Genetics, Infrastructure, Software |
| Version | 0.99.8 |
| In Bioconductor since | BioC 3.23 (R-4.6) |
| License | MIT + file LICENSE |
| Depends | R (>= 4.1.0), methods, Rcpp, DelayedArray, SummarizedExperiment |
| Imports | BiocFileCache, GenomicRanges, IRanges |
| System Requirements | |
| URL | https://github.com/vjcitn/PlinkMatrix |
| Bug Reports | https://github.com/vjcitn/PlinkMatrix/issues |
See More
| Suggests | knitr, BiocStyle, testthat, rmarkdown, irlba, GenomeInfoDb |
| Linking To | Rcpp |
| Enhances | |
| Depends On Me | |
| Imports Me | |
| Suggests Me | |
| Links To Me | |
| Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | PlinkMatrix_0.99.8.tar.gz |
| Windows Binary (x86_64) | |
| macOS Binary (big-sur-x86_64) | |
| macOS Binary (big-sur-arm64) | |
| macOS Binary (sonoma-arm64) | PlinkMatrix_0.99.8.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/PlinkMatrix |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/PlinkMatrix |
| Bioc Package Browser | https://code.bioconductor.org/browse/PlinkMatrix/ |
| Package Short Url | https://bioconductor.org/packages/PlinkMatrix/ |
| Package Downloads Report | Download Stats |