PING

DOI: 10.18129/B9.bioc.PING    

This package is for version 3.8 of Bioconductor; for the stable, up-to-date release version, see PING.

Probabilistic inference for Nucleosome Positioning with MNase-based or Sonicated Short-read Data

Bioconductor version: 3.8

Probabilistic inference of ChIP-Seq using an empirical Bayes mixture model approach.

Author: Xuekui Zhang <xuezhang at jhsph.edu>, Raphael Gottardo <raph at stat.ubc.ca>, Sangsoon Woo <swoo at fhcrc.org>

Maintainer: Renan Sauteraud <rsautera at fhcrc.org>

Citation (from within R, enter citation("PING")):

Installation

To install this package, start R (version "3.5") and enter:

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

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("PING")

 

PDF R Script The PING users guide
PDF R Script Using PING with paired-end sequencing data
PDF   Reference Manual
Text   NEWS

Details

biocViews Clustering, Sequencing, Software, StatisticalMethod, Visualization
Version 2.26.0
In Bioconductor since BioC 2.10 (R-2.15) (7 years)
License Artistic-2.0
Depends R (>= 2.15.0), chipseq, IRanges, GenomicRanges
Imports methods, PICS, graphics, grDevices, stats, Gviz, fda, BSgenome, stats4, BiocGenerics, IRanges, S4Vectors
LinkingTo
Suggests parallel, ShortRead, rtracklayer
SystemRequirements
Enhances
URL
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 PING_2.26.0.tar.gz
Windows Binary PING_2.26.0.zip
Mac OS X 10.11 (El Capitan) PING_2.26.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/PING
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/PING
Package Short Url http://bioconductor.org/packages/PING/
Package Downloads Report Download Stats

Documentation »

Bioconductor

R / CRAN packages and documentation

Support »

Please read the posting guide. Post questions about Bioconductor to one of the following locations: