BasicSTARRseq
This package is for version 3.11 of Bioconductor; for the stable, up-to-date release version, see BasicSTARRseq.
Basic peak calling on STARR-seq data
Bioconductor version: 3.11
Basic peak calling on STARR-seq data based on a method introduced in "Genome-Wide Quantitative Enhancer Activity Maps Identified by STARR-seq" Arnold et al. Science. 2013 Mar 1;339(6123):1074-7. doi: 10.1126/science. 1232542. Epub 2013 Jan 17.
Author: Annika Buerger
Maintainer: Annika Buerger <annika.buerger at ukmuenster.de>
citation("BasicSTARRseq")
):
Installation
To install this package, start R (version "4.0") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("BasicSTARRseq")
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("BasicSTARRseq")
BasicSTARRseq.pdf | R Script | |
Reference Manual | ||
NEWS | Text |
Details
biocViews | Coverage, FunctionalGenomics, FunctionalPrediction, GeneRegulation, PeakDetection, Software |
Version | 1.16.0 |
In Bioconductor since | BioC 3.3 (R-3.3) (8 years) |
License | LGPL-3 |
Depends | GenomicRanges, GenomicAlignments |
Imports | S4Vectors, methods, IRanges, GenomeInfoDb, stats |
System Requirements | |
URL |
See More
Suggests | knitr |
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 | BasicSTARRseq_1.16.0.tar.gz |
Windows Binary | BasicSTARRseq_1.16.0.zip |
macOS 10.13 (High Sierra) | BasicSTARRseq_1.16.0.tgz |
Source Repository | git clone https://git.bioconductor.org/packages/BasicSTARRseq |
Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/BasicSTARRseq |
Bioc Package Browser | https://code.bioconductor.org/browse/BasicSTARRseq/ |
Package Short Url | https://bioconductor.org/packages/BasicSTARRseq/ |
Package Downloads Report | Download Stats |
Old Source Packages for BioC 3.11 | Source Archive |