TxRegInfra
This package is for version 3.8 of Bioconductor. This package has been removed from Bioconductor. For the last stable, up-to-date release version, see TxRegInfra.
Metadata management for multiomic specification of transcriptional regulatory networks
Bioconductor version: 3.8
This package provides interfaces to genomic metadata employed in regulatory network creation, with a focus on noSQL solutions. Currently quantitative representations of eQTLs, DnaseI hypersensitivity sites and digital genomic footprints are assembled using an out-of-memory extension of the RaggedExperiment API.
Author: Vince Carey
Maintainer: VJ Carey <stvjc at channing.harvard.edu>
citation("TxRegInfra")
):
Installation
To install this package, start R (version "3.5") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("TxRegInfra")
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("TxRegInfra")
TxRegInfra -- classes and methods for TxRegQuery | HTML | R Script |
Reference Manual | ||
NEWS | Text |
Details
biocViews | Network, Software |
Version | 1.2.1 |
In Bioconductor since | BioC 3.7 (R-3.5) (6 years) |
License | Artistic-2.0 |
Depends | RaggedExperiment(>= 1.3.11), mongolite |
Imports | methods, rjson, GenomicRanges, IRanges, BiocParallel, GenomeInfoDb, S4Vectors, SummarizedExperiment, utils |
System Requirements | |
URL |
See More
Suggests | knitr, GenomicFiles, EnsDb.Hsapiens.v75, testthat, biovizBase(>= 1.27.2), Gviz, AnnotationFilter, ensembldb |
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 | TxRegInfra_1.2.1.tar.gz |
Windows Binary | TxRegInfra_1.2.1.zip |
Mac OS X 10.11 (El Capitan) | TxRegInfra_1.2.1.tgz |
Source Repository | git clone https://git.bioconductor.org/packages/TxRegInfra |
Source Repository (Developer Access) | git clone [email protected]:packages/TxRegInfra |
Bioc Package Browser | https://code.bioconductor.org/browse/TxRegInfra/ |
Package Short Url | https://bioconductor.org/packages/TxRegInfra/ |
Package Downloads Report | Download Stats |
Old Source Packages for BioC 3.8 | Source Archive |