fCCAC

DOI: 10.18129/B9.bioc.fCCAC    

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

Bioconductor version: Release (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>

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

Installation

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

if (!requireNamespace("BiocManager", quietly = TRUE))
    install.packages("BiocManager")
BiocManager::install("fCCAC", version = "3.8")

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 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

Documentation »

Bioconductor

R / CRAN packages and documentation

Support »

Please read the posting guide. Post questions about Bioconductor to one of the following locations: