TReNA
This package is for version 3.6 of Bioconductor; for the stable, up-to-date release version, see TReNA.
Fit transcriptional regulatory networks using gene expression, priors, machine learning
Bioconductor version: 3.6
Methods for reconstructing transcriptional regulatory networks, especially in species for which genome-wide TF binding site information is available.
Author: Seth Ament <seth.ament at systemsbiology.org>, Paul Shannon <pshannon at systemsbioloyg.org>, Matthew Richards <mrichard at systemsbiology.org>
Maintainer: Matthew Richards <mrichard at systemsbiology.org>
citation("TReNA")):
Installation
To install this package, start R (version "3.4") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("TReNA")
For older versions of R, please refer to the appropriate Bioconductor release.
Documentation
| Reference Manual | |
| NEWS | Text |
Details
| biocViews | FeatureExtraction, GeneExpression, GeneRegulation, NetworkInference, Regression, Software, SystemsBiology, Transcription |
| Version | 0.99.10 |
| License | GPL-3 |
| Depends | R (>= 3.4.0), utils, glmnet (>= 2.0.3) |
| Imports | RSQLite, lassopv, randomForest, flare, vbsr, foreach, doParallel, RPostgreSQL, methods, DBI, GenomicRanges |
| System Requirements | |
| URL |
See More
| Suggests | RUnit, limma, plyr, knitr, BiocGenerics, 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 | TReNA_0.99.10.tar.gz |
| Windows Binary | TReNA_0.99.10.zip |
| Mac OS X 10.11 (El Capitan) | TReNA_0.99.10.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/TReNA |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/TReNA |
| Package Short Url | https://bioconductor.org/packages/TReNA/ |
| Package Downloads Report | Download Stats |
| Old Source Packages for BioC 3.6 | Source Archive |