atSNP
This package is for version 3.14 of Bioconductor; for the stable, up-to-date release version, see atSNP.
Affinity test for identifying regulatory SNPs
Bioconductor version: 3.14
atSNP performs affinity tests of motif matches with the SNP or the reference genomes and SNP-led changes in motif matches.
Author: Chandler Zuo [aut], Sunyoung Shin [aut, cre], Sunduz Keles [aut]
Maintainer: Sunyoung Shin <sunyoung.shin at utdallas.edu>
Citation (from within R, enter
citation("atSNP")
):
Installation
To install this package, start R (version "4.1") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("atSNP")
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("atSNP")
atsnp-vignette.html | HTML | R Script |
Reference Manual | ||
NEWS | Text |
Details
biocViews | ChIPSeq, GenomeAnnotation, MotifAnnotation, Software, Visualization |
Version | 1.10.0 |
In Bioconductor since | BioC 3.9 (R-3.6) (5 years) |
License | GPL-2 |
Depends | R (>= 3.6) |
Imports | BSgenome, BiocFileCache, BiocParallel, Rcpp, data.table, ggplot2, grDevices, graphics, grid, motifStack, rappdirs, stats, testthat, utils, lifecycle |
System Requirements | |
URL | https://github.com/sunyoungshin/atSNP |
Bug Reports | https://github.com/sunyoungshin/atSNP/issues |
See More
Suggests | BiocStyle, knitr, rmarkdown |
Linking To | Rcpp |
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 | atSNP_1.10.0.tar.gz |
Windows Binary | atSNP_1.10.0.zip (32- & 64-bit) |
macOS 10.13 (High Sierra) | atSNP_1.10.0.tgz |
Source Repository | git clone https://git.bioconductor.org/packages/atSNP |
Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/atSNP |
Bioc Package Browser | https://code.bioconductor.org/browse/atSNP/ |
Package Short Url | https://bioconductor.org/packages/atSNP/ |
Package Downloads Report | Download Stats |
Old Source Packages for BioC 3.14 | Source Archive |