fCCAC

DOI: 10.18129/B9.bioc.fCCAC    

This package is for version 3.8 of Bioconductor; for the stable, up-to-date release version, see fCCAC.

functional Canonical Correlation Analysis to evaluate Covariance between nucleic acid sequencing datasets

Bioconductor version: 3.8

An application of functional canonical correlation analysis to assess covariance of nucleic acid sequencing datasets such as chromatin immunoprecipitation followed by deep sequencing (ChIP-seq). The package can be used as well with other types of sequencing data such as neMeRIP-seq (PMID: 29489750) or with single cell RNA-seq or epigenome data provided in bigWig format.

Author: Pedro Madrigal <bioinformatics.engineer at gmail.com>

Maintainer: Pedro Madrigal <bioinformatics.engineer at gmail.com>

Installation

To install this package, start R (version "3.5") and enter:

if (!requireNamespace("BiocManager", quietly = TRUE))
    install.packages("BiocManager")
BiocManager::install("fCCAC")

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("fCCAC")

 

PDF	R Script	fCCAC Vignette
PDF		Reference Manual
Text		NEWS

Details

biocViews	Coverage, Genetics, Sequencing, Software, Transcription
Version	1.8.0
In Bioconductor since	BioC 3.4 (R-3.3) (2.5 years)
License	Artistic-2.0
Depends	R (>= 3.3.0), S4Vectors, IRanges, GenomicRanges, grid
Imports	fda, RColorBrewer, genomation, ggplot2, ComplexHeatmap, grDevices, stats, utils
LinkingTo
Suggests	RUnit, BiocGenerics, BiocStyle
SystemRequirements
Enhances
URL
Depends On Me
Imports Me
Suggests Me
Links To Me
Build Report

Package Archives

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

Source Package	fCCAC_1.8.0.tar.gz
Windows Binary	fCCAC_1.8.0.zip
Mac OS X 10.11 (El Capitan)	fCCAC_1.8.0.tgz
Source Repository	git clone https://git.bioconductor.org/packages/fCCAC
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/fCCAC
Package Short Url	http://bioconductor.org/packages/fCCAC/
Package Downloads Report	Download Stats