PING

This package is for version 3.7 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: 3.7

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 (!require("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")
The PING users guide PDF R Script
Using PING with paired-end sequencing data PDF R Script
Reference Manual PDF
NEWS Text

Details

biocViews Clustering, Sequencing, Software, StatisticalMethod, Visualization
Version 2.24.0
In Bioconductor since BioC 2.10 (R-2.15) (12 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
System Requirements
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Suggests parallel, ShortRead, rtracklayer
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Depends On Me
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Package Archives

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

Source Package PING_2.24.0.tar.gz
Windows Binary PING_2.24.0.zip (32- & 64-bit)
Mac OS X 10.11 (El Capitan) PING_2.24.0.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 https://bioconductor.org/packages/PING/
Package Downloads Report Download Stats
Old Source Packages for BioC 3.7 Source Archive