fCCAC

This package is for version 3.9 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: 3.9

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 "3.6") and enter:


if (!require("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")
fCCAC Vignette PDF R Script
Reference Manual PDF
NEWS Text

Details

biocViews Coverage, Genetics, Sequencing, Software, Transcription
Version 1.10.0
In Bioconductor since BioC 3.4 (R-3.3) (7.5 years)
License Artistic-2.0
Depends R (>= 3.3.0), S4Vectors, IRanges, GenomicRanges, grid
Imports fda, RColorBrewer, genomation, ggplot2, ComplexHeatmap, grDevices, stats, utils
System Requirements
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Suggests RUnit, BiocGenerics, BiocStyle
Linking To
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Package Archives

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

Source Package fCCAC_1.10.0.tar.gz
Windows Binary fCCAC_1.10.0.zip (32- & 64-bit)
Mac OS X 10.11 (El Capitan) fCCAC_1.10.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/fCCAC
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/fCCAC
Bioc Package Browser https://code.bioconductor.org/browse/fCCAC/
Package Short Url https://bioconductor.org/packages/fCCAC/
Package Downloads Report Download Stats
Old Source Packages for BioC 3.9 Source Archive