To install this package, start R and enter:

## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("Scale4C")

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

Scale4C

DOI: 10.18129/B9.bioc.Scale4C    

Scale4C: an R/Bioconductor package for scale-space transformation of 4C-seq data

Bioconductor version: Release (3.6)

Scale4C is an R/Bioconductor package for scale-space transformation and visualization of 4C-seq data. The scale-space transformation is a multi-scale visualization technique to transform a 2D signal (e.g. 4C-seq reads on a genomic interval of choice) into a tesselation in the scale space (2D, genomic position x scale factor) by applying different smoothing kernels (Gauss, with increasing sigma). This transformation allows for explorative analysis and comparisons of the data's structure with other samples.

Author: Carolin Walter

Maintainer: Carolin Walter <carolin.walter at uni-muenster.de>

Citation (from within R, enter citation("Scale4C")):

Installation

To install this package, start R and enter:

## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("Scale4C")

Documentation

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

browseVignettes("Scale4C")

 

PDF R Script Scale4C: an R/Bioconductor package for scale-space transformation of 4C-seq data
PDF   Reference Manual
Text   NEWS

Details

biocViews Coverage, DataImport, QualityControl, Sequencing, Software, Visualization
Version 1.0.0
License LGPL-3
Depends R (>= 3.4), smoothie, GenomicRanges, IRanges, SummarizedExperiment
Imports methods, grDevices, graphics, utils
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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 Scale4C_1.0.0.tar.gz
Windows Binary Scale4C_1.0.0.zip
Mac OS X 10.11 (El Capitan) Scale4C_1.0.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/Scale4C
Package Short Url http://bioconductor.org/packages/Scale4C/
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