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QTLExperiment

This is the development version of QTLExperiment; for the stable release version, see QTLExperiment.

S4 classes for QTL summary statistics and metadata


Bioconductor version: Development (3.19)

QLTExperiment defines an S4 class for storing and manipulating summary statistics from QTL mapping experiments in one or more states. It is based on the 'SummarizedExperiment' class and contains functions for creating, merging, and subsetting objects. 'QTLExperiment' also stores experiment metadata and has checks in place to ensure that transformations apply correctly.

Author: Christina Del Azodi [aut], Davis McCarthy [ctb], Amelia Dunstone [cre, ctb]

Maintainer: Amelia Dunstone <amelia.dunstone at svi.edu.au>

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

Installation

To install this package, start R (version "4.4") and enter:


if (!require("BiocManager", quietly = TRUE))
    install.packages("BiocManager")

# The following initializes usage of Bioc devel
BiocManager::install(version='devel')

BiocManager::install("QTLExperiment")

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("QTLExperiment")
An introduction to the QTLExperiment class HTML R Script
Reference Manual PDF

Details

biocViews DataImport, DataRepresentation, FunctionalGenomics, Infrastructure, SNP, Sequencing, Software
Version 1.1.0
In Bioconductor since BioC 3.18 (R-4.3) (< 6 months)
License GPL-3
Depends SummarizedExperiment
Imports methods, rlang, checkmate, dplyr, collapse, vroom, tidyr, tibble, utils, stats, ashr, S4Vectors, BiocGenerics
System Requirements
URL https://github.com/dunstone-a/QTLExperiment
Bug Reports https://github.com/dunstone-a/QTLExperiment/issues
See More
Suggests testthat, BiocStyle, knitr, rmarkdown, covr
Linking To
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Depends On Me
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Package Archives

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

Source Package QTLExperiment_1.1.0.tar.gz
Windows Binary QTLExperiment_1.1.0.zip
macOS Binary (x86_64) QTLExperiment_1.1.0.tgz
macOS Binary (arm64)
Source Repository git clone https://git.bioconductor.org/packages/QTLExperiment
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/QTLExperiment
Bioc Package Browser https://code.bioconductor.org/browse/QTLExperiment/
Package Short Url https://bioconductor.org/packages/QTLExperiment/
Package Downloads Report Download Stats