BasicSTARRseq
This package is for version 3.17 of Bioconductor; for the stable, up-to-date release version, see BasicSTARRseq.
Basic peak calling on STARR-seq data
Bioconductor version: 3.17
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 "4.3") 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 | 1.28.0 |
| 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_1.28.0.tar.gz |
| Windows Binary | BasicSTARRseq_1.28.0.zip |
| macOS Binary (x86_64) | BasicSTARRseq_1.28.0.tgz |
| macOS Binary (arm64) | BasicSTARRseq_1.28.0.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 3.17 | Source Archive |