orthosData

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

All versions

3.24 (devel), 3.23 (release), 3.22, 3.21, 3.20, 3.19, 3.18

Data for the orthos package

Bioconductor version: Development (3.24)

`orthosData` is the companion ExperimentData package to the `orthos` R package for mechanistic studies using differential gene expression experiments. It provides functions for retrieval from ExperimentHub and local caching of the models and datasets used internally in orthos.

Author: Panagiotis Papasaikas [aut, cre] ORCID: 0000-0002-1640-7636 , Charlotte Soneson [aut] ORCID: 0000-0003-3833-2169 , Michael Stadler [aut] ORCID: 0000-0002-2269-4934 , Friedrich Miescher Institute for Biomedical Research [cph]

Maintainer: Panagiotis Papasaikas <panagiotis.papasaikas at fmi.ch>

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

Panagiotis Papasaikas, Charlotte Soneson, Michael Stadler. orthosData: Data for the orthos package. doi:10.18129/B9.bioc.orthosData, R package version 1.11.0, https://bioconductor.org/packages/orthosData.

Generated from the package metadata; it may differ from the package's own citation.

Installation

To install this package, start R (version "4.6") and enter:

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

## The following initializes the development version of Bioconductor
BiocManager::install(version = "devel")

BiocManager::install("orthosData")

For older versions of R, please refer to the appropriate Bioconductor release.

Documentation

No vignettes available
Reference Manual	PDF

Need some help? Ask on the Bioconductor Support site!

Details

biocViews	ExperimentData, ExperimentHub, RNASeqData
Version	1.11.0
In Bioconductor since	BioC 3.18 (R-4.3) (3 years)
License	MIT + file LICENSE
Depends
Imports	AnnotationHub, BiocFileCache, ExperimentHub, HDF5Array, stringr, SummarizedExperiment
System Requirements
URL	https://github.com/fmicompbio/orthosData
Bug Reports	https://github.com/fmicompbio/orthosData/issues

Suggests	BiocStyle, ggplot2, knitr, rmarkdown, testthat
Linking To
Enhances
Depends On Me
Imports Me	orthos
Suggests Me
Links To Me
Build Report	Build Report, r-universe

Package Archives

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

Source Package	orthosData_1.11.0.tar.gz
Windows Binary (x86_64)
macOS Binary (big-sur-x86_64)
macOS Binary (sonoma-arm64)
Source Repository	git clone https://git.bioconductor.org/packages/orthosData
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/orthosData
Package Short Url	https://bioconductor.org/packages/orthosData/
Package Downloads Report	Download Stats