fCCAC
This is the development version of fCCAC; for the stable release version, see fCCAC.
functional Canonical Correlation Analysis to evaluate Covariance between nucleic acid sequencing datasets
Bioconductor version: Development (3.21)
Computational evaluation of variability across DNA or RNA sequencing datasets is a crucial step in genomics, as it allows both to evaluate reproducibility of replicates, and to compare different datasets to identify potential correlations. fCCAC applies functional Canonical Correlation Analysis to allow the assessment of: (i) reproducibility of biological or technical replicates, analyzing their shared covariance in higher order components; and (ii) the associations between different datasets. fCCAC represents a more sophisticated approach that complements Pearson correlation of genomic coverage.
Author: Pedro Madrigal [aut, cre] (ORCID:
Maintainer: Pedro Madrigal <pmadrigal at ebi.ac.uk>
citation("fCCAC")):
Installation
To install this package, start R (version "4.5") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
# The following initializes usage of Bioc devel
BiocManager::install(version='devel')
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 | R Script | |
| Reference Manual | ||
| NEWS | Text |
Details
| biocViews | ATACSeq, ChIPSeq, Coverage, Epigenetics, FunctionalGenomics, MNaseSeq, RNASeq, Sequencing, Software, Transcription |
| Version | 1.33.0 |
| In Bioconductor since | BioC 3.4 (R-3.3) (8 years) |
| License | Artistic-2.0 |
| Depends | R (>= 4.2.0), S4Vectors, IRanges, GenomicRanges, grid |
| Imports | fda, RColorBrewer, genomation, ggplot2, ComplexHeatmap, grDevices, stats, utils |
| System Requirements | |
| URL |
See More
| Suggests | RUnit, BiocGenerics, BiocStyle, knitr, rmarkdown |
| Linking To | |
| Enhances | |
| Depends On Me | |
| Imports Me | |
| Suggests Me | |
| Links To Me | |
| Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | fCCAC_1.33.0.tar.gz |
| Windows Binary (x86_64) | fCCAC_1.33.0.zip |
| macOS Binary (x86_64) | |
| macOS Binary (arm64) | |
| 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 |