multistateQTL
This is the released version of multistateQTL; for the devel version, see multistateQTL.
Toolkit for the analysis of multi-state QTL data
Bioconductor version: Release (3.21)
A collection of tools for doing various analyses of multi-state QTL data, with a focus on visualization and interpretation. The package 'multistateQTL' contains functions which can remove or impute missing data, identify significant associations, as well as categorise features into global, multi-state or unique. The analysis results are stored in a 'QTLExperiment' object, which is based on the 'SummarisedExperiment' framework.
Author: Christina Del Azodi [aut], Davis McCarthy [ctb], Amelia Dunstone [cre, aut]
Maintainer: Amelia Dunstone <amelia.dunstone at svi.edu.au>
citation("multistateQTL")):
Installation
To install this package, start R (version "4.5") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("multistateQTL")
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("multistateQTL")| multistateQTL: Orchestrating multi-state QTL analysis in R | HTML | R Script |
| Reference Manual | ||
| NEWS | Text |
Details
| biocViews | FunctionalGenomics, GeneExpression, SNP, Sequencing, Software, Visualization |
| Version | 2.0.0 |
| In Bioconductor since | BioC 3.19 (R-4.4) (1.5 years) |
| License | GPL-3 |
| Depends | QTLExperiment, SummarizedExperiment, ComplexHeatmap, data.table, collapse |
| Imports | methods, S4Vectors, grid, dplyr, tidyr, matrixStats, stats, fitdistrplus, viridis, ggplot2, circlize, mashr, grDevices |
| System Requirements | |
| URL | https://github.com/dunstone-a/multistateQTL |
| Bug Reports | https://github.com/dunstone-a/multistateQTL/issues |
See More
| Suggests | testthat, BiocStyle, knitr, covr, rmarkdown |
| Linking To | |
| 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 | multistateQTL_2.0.0.tar.gz |
| Windows Binary (x86_64) | multistateQTL_2.0.0.zip |
| macOS Binary (x86_64) | multistateQTL_2.0.0.tgz |
| macOS Binary (arm64) | multistateQTL_2.0.0.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/multistateQTL |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/multistateQTL |
| Bioc Package Browser | https://code.bioconductor.org/browse/multistateQTL/ |
| Package Short Url | https://bioconductor.org/packages/multistateQTL/ |
| Package Downloads Report | Download Stats |