atSNP

This package is for version 3.9 of Bioconductor; for the stable, up-to-date release version, see atSNP.

Affinity test for identifying regulatory SNPs

Bioconductor version: 3.9

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")):

To install this package, start R (version "3.6") 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.

To view documentation for the version of this package installed in your system, start R and enter:

browseVignettes("atSNP")

biocViews	ChIPSeq, GenomeAnnotation, MotifAnnotation, Software, Visualization
Version	1.0.0
In Bioconductor since	BioC 3.9 (R-3.6) (5 years)
License	GPL-2
Depends	R (>= 3.6)
Imports	Rcpp, data.table, BiocParallel, BiocFileCache, rappdirs, BSgenome, motifStack, grDevices, graphics, stats, utils, grid
System Requirements
URL	https://github.com/sunyoungshin/atSNP
Bug Reports	https://github.com/sunyoungshin/atSNP/issues

Suggests	testthat, BiocStyle, knitr, rmarkdown
Linking To	Rcpp
Enhances
Depends On Me
Imports Me
Suggests Me
Links To Me
Build Report	Build Report

Follow Installation instructions to use this package in your R session.

Source Package	atSNP_1.0.0.tar.gz
Windows Binary	atSNP_1.0.0.zip (32- & 64-bit)
Mac OS X 10.11 (El Capitan)	atSNP_1.0.0.tgz
Source Repository	git clone https://git.bioconductor.org/packages/atSNP
Source Repository (Developer Access)	git clone [email protected]: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 3.9	Source Archive