NuPoP
This package is for version 3.13 of Bioconductor; for the stable, up-to-date release version, see NuPoP.
An R package for nucleosome positioning prediction
Bioconductor version: 3.13
NuPoP is an R package for Nucleosome Positioning Prediction.This package is built upon a duration hidden Markov model proposed in Xi et al, 2010; Wang et al, 2008. The core of the package was written in Fotran. In addition to the R package, a stand-alone Fortran software tool is also available at http://nucleosome.stats.northwestern.edu.
Author: Ji-Ping Wang <jzwang at northwestern.edu>; Liqun Xi <liqunxi02 at gmail.com>; Oscar Zarate <zarate at u.northwestern.edu>
Maintainer: Ji-Ping Wang<jzwang at northwestern.edu>
citation("NuPoP")):
Installation
To install this package, start R (version "4.1") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("NuPoP")
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("NuPoP")| NuPoP | HTML | R Script |
| Reference Manual | ||
| NEWS | Text |
Details
| biocViews | Classification, Genetics, HiddenMarkovModel, NucleosomePositioning, Software, Visualization |
| Version | 2.0.0 |
| In Bioconductor since | BioC 2.7 (R-2.12) (13.5 years) |
| License | GPL-2 |
| Depends | R (>= 4.0) |
| Imports | graphics, utils |
| System Requirements | |
| URL |
See More
| Suggests | knitr, rmarkdown |
| Linking To | |
| Enhances | |
| Depends On Me | |
| Imports Me | |
| Suggests Me | nuCpos |
| Links To Me | |
| Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | NuPoP_2.0.0.tar.gz |
| Windows Binary | NuPoP_2.0.0.zip |
| macOS 10.13 (High Sierra) | NuPoP_2.0.0.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/NuPoP |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/NuPoP |
| Bioc Package Browser | https://code.bioconductor.org/browse/NuPoP/ |
| Package Short Url | https://bioconductor.org/packages/NuPoP/ |
| Package Downloads Report | Download Stats |
| Old Source Packages for BioC 3.13 | Source Archive |