dorothea

DOI: 10.18129/B9.bioc.dorothea    

Collection Of Human And Mouse TF Regulons

Bioconductor version: Release (3.15)

DoRothEA is a gene regulatory network containing signed transcription factor (TF) - target gene interactions. DoRothEA regulons, the collection of a TF and its transcriptional targets, were curated and collected from different types of evidence for both human and mouse. A confidence level was assigned to each TF-target interaction based on the number of supporting evidence.

Author: Daniel Dimitrov [cre] , Christian H. Holland [aut] , Luz Garcia-Alonso [aut], Alberto Valdeolivas [ctb], Minoo Ashtiani [ctb], Attila Gabor [ctb]

Maintainer: Daniel Dimitrov <daniel.dimitrov at uni-heidelberg.de>

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

Installation

To install this package, start R (version "4.2") and enter:

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

BiocManager::install("dorothea")

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("dorothea")

 

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Details

biocViews ExperimentData, Homo_sapiens_Data, Mus_musculus_Data
Version 1.8.0
License GPL-3 + file LICENSE
Depends R (>= 4.0)
Imports dplyr, magrittr, bcellViper, viper
LinkingTo
Suggests Biobase, BiocStyle, knitr, pheatmap, pkgdown, rmarkdown, Seurat, SingleCellExperiment, SummarizedExperiment, testthat (>= 2.1.0), tibble, tidyr, utils
SystemRequirements
Enhances
URL https://saezlab.github.io/dorothea/ https://github.com/saezlab/dorothea
BugReports https://github.com/saezlab/dorothea/issues
Depends On Me
Imports Me cosmosR, easier
Suggests Me MethReg
Links To Me
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Package Archives

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Source Package dorothea_1.8.0.tar.gz
Windows Binary
macOS 10.13 (High Sierra)
Source Repository git clone https://git.bioconductor.org/packages/dorothea
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/dorothea
Package Short Url https://bioconductor.org/packages/dorothea/
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