birta
This package is for version 3.9 of Bioconductor. This package has been removed from Bioconductor. For the last stable, up-to-date release version, see birta.
Bayesian Inference of Regulation of Transcriptional Activity
Bioconductor version: 3.9
Expression levels of mRNA molecules are regulated by different processes, comprising inhibition or activation by transcription factors and post-transcriptional degradation by microRNAs. birta (Bayesian Inference of Regulation of Transcriptional Activity) uses the regulatory networks of TFs and miRNAs together with mRNA and miRNA expression data to predict switches in regulatory activity between two conditions. A Bayesian network is used to model the regulatory structure and Markov-Chain-Monte-Carlo is applied to sample the activity states.
Author: Benedikt Zacher, Khalid Abnaof, Stephan Gade, Erfan Younesi, Achim Tresch, Holger Froehlich
Maintainer: Benedikt Zacher <zacher at lmb.uni-muenchen.de>, Holger Froehlich <frohlich at bit.uni-bonn.de>
citation("birta")):
Installation
To install this package, start R (version "3.6") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("birta")
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("birta")| Bayesian Inference of Regulation of Transcriptional Activity | R Script | |
| Reference Manual | ||
| NEWS | Text |
Details
| biocViews | GeneExpression, GraphAndNetwork, Microarray, Sequencing, Software, Transcription |
| Version | 1.28.0 |
| In Bioconductor since | BioC 2.10 (R-2.15) (12 years) |
| License | GPL (>= 2) |
| Depends | limma, MASS, R (>= 2.10), Biobase, methods |
| Imports | |
| System Requirements | |
| URL |
See More
| Suggests | |
| Linking To | |
| Enhances | |
| Depends On Me | |
| Imports Me | |
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| Links To Me | |
| Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | birta_1.28.0.tar.gz |
| Windows Binary | birta_1.28.0.zip (32- & 64-bit) |
| Mac OS X 10.11 (El Capitan) | birta_1.28.0.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/birta |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/birta |
| Bioc Package Browser | https://code.bioconductor.org/browse/birta/ |
| Package Short Url | https://bioconductor.org/packages/birta/ |
| Package Downloads Report | Download Stats |
| Old Source Packages for BioC 3.9 | Source Archive |