To install this package, start R and enter:

## try http:// if https:// URLs are not supported
source("http://bioc.ism.ac.jp/biocLite.R")
biocLite("FunChIP")

In most cases, you don't need to download the package archive at all.

FunChIP

 

   

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

Clustering and Alignment of ChIP-Seq peaks based on their shapes

Bioconductor version: Development (3.6)

Preprocessing and smoothing of ChIP-Seq peaks and efficient implementation of the k-mean alignment algorithm to classify them.

Author: Alice Parodi [aut, cre], Marco Morelli [aut, cre], Laura M. Sangalli [aut], Piercesare Secchi [aut], Simone Vantini [aut]

Maintainer: Alice Parodi <alicecarla.parodi at polimi.it>

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

Installation

To install this package, start R and enter:

## try http:// if https:// URLs are not supported
source("http://bioc.ism.ac.jp/biocLite.R")
biocLite("FunChIP")

Documentation

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

browseVignettes("FunChIP")

 

PDF R Script An introduction to FunChIP
PDF   Reference Manual
Text   NEWS

Details

biocViews ChIPSeq, Clustering, Software, StatisticalMethod
Version 1.3.0
In Bioconductor since BioC 3.4 (R-3.3) (0.5 years)
License Artistic-2.0
Depends R (>= 3.2), GenomicRanges
Imports shiny, fda, doParallel, GenomicAlignments, Rcpp, methods, foreach, parallel, GenomeInfoDb, Rsamtools, grDevices, graphics, stats, RColorBrewer
LinkingTo Rcpp
Suggests
SystemRequirements
Enhances
URL
Depends On Me
Imports Me
Suggests Me
Build Report  

Package Archives

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

Package Source FunChIP_1.3.0.tar.gz
Windows Binary FunChIP_1.3.0.zip (32- & 64-bit)
Mac OS X 10.11 (El Capitan) FunChIP_1.3.0.tgz
Subversion source (username/password: readonly)
Git source https://github.com/Bioconductor-mirror/FunChIP
Package Short Url http://bioconductor.org/packages/FunChIP/
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: