ChIP-Seq Processing Pipeline

Analysis of ChIP-seq and other functional sequencing data [Kharchenko PV (2008) ].


An R package for analysis of ChIP-seq and other functional sequencing data. Please see package homepage for details.

Requirements

A unix-flavored OS with R (>= 3.3.0) installed.

Installation

Since version 1.15.4 spp is available on CRAN and can be installed using the command

install.pacakges("spp", dependencies=TRUE)

Alternatively you can use modtools to install spp:

require(devtools)
devtools::install_github('hms-dbmi/spp', build_vignettes = FALSE)

Or

download a .tar.gz containing the latest release and use the standard R installation command, e.g.:

R CMD INSTALL spp_1.13.tar.gz

Note: Since version 1.15.4 the Boost headers are incorporated and linked taking advantage of BH package to avoid problems due to non-standard Boost libraries installation.

News

Reference manual

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install.packages("spp")

1.16.0 by Peter Kharchenko, 4 months ago


Browse source code at https://github.com/cran/spp


Authors: Peter K


Documentation:   PDF Manual  


GPL-2 license


Imports Rsamtools, caTools, parallel, graphics, stats

Depends on Rcpp

Suggests methods

Linking to Rcpp, BH


See at CRAN