atSNP

DOI: 10.18129/B9.bioc.atSNP    

This is the development version of atSNP; for the stable release version, see atSNP.

Affinity test for identifying regulatory SNPs

Bioconductor version: Development (3.12)

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 "4.0") and enter:

if (!requireNamespace("BiocManager", quietly = TRUE))
    install.packages("BiocManager")

# The following initializes usage of Bioc devel
BiocManager::install(version='devel')

BiocManager::install("atSNP")

For older versions of R, please refer to the appropriate Bioconductor release.

Documentation

PDF   Reference Manual

Details

biocViews ChIPSeq, GenomeAnnotation, MotifAnnotation, Software, Visualization
Version 1.5.0
In Bioconductor since BioC 3.9 (R-3.6) (1.5 years)
License GPL-2
Depends R (>= 3.6)
Imports BSgenome, BiocFileCache, BiocParallel, Rcpp, data.table, ggplot2, grDevices, graphics, grid, motifStack, rappdirs, stats, testit, utils
LinkingTo Rcpp
Suggests testthat, BiocStyle, knitr, rmarkdown
SystemRequirements
Enhances
URL https://github.com/sunyoungshin/atSNP
BugReports https://github.com/sunyoungshin/atSNP/issues
Depends On Me
Imports Me
Suggests Me
Links To Me
Build Report  

Package Archives

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

Source Package
Windows Binary atSNP_1.5.0.zip (32- & 64-bit)
macOS 10.13 (High Sierra) atSNP_1.5.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/atSNP
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/atSNP
Package Short Url https://bioconductor.org/packages/atSNP/
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