consICA
This is the development version of consICA; for the stable release version, see consICA.
consensus Independent Component Analysis
Bioconductor version: Development (3.21)
consICA implements a data-driven deconvolution method – consensus independent component analysis (ICA) to decompose heterogeneous omics data and extract features suitable for patient diagnostics and prognostics. The method separates biologically relevant transcriptional signals from technical effects and provides information about the cellular composition and biological processes. The implementation of parallel computing in the package ensures efficient analysis of modern multicore systems.
Author: Petr V. Nazarov [aut, cre] (ORCID:
Maintainer: Petr V. Nazarov <petr.nazarov at lih.lu>
citation("consICA")):
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("consICA")
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("consICA")| The consICA package: User’s manual | HTML | R Script |
| Reference Manual | ||
| NEWS | Text | |
| LICENSE | Text |
Details
| biocViews | Classification, FeatureExtraction, RNASeq, Sequencing, Software, StatisticalMethod, Technology, Transcriptomics |
| Version | 2.5.0 |
| In Bioconductor since | BioC 3.16 (R-4.2) (2 years) |
| License | MIT + file LICENSE |
| Depends | R (>= 4.2.0) |
| Imports | fastICA (>= 1.2.1), sm, org.Hs.eg.db, GO.db, stats, SummarizedExperiment, BiocParallel, graph, ggplot2, methods, Rfast, pheatmap, survival, topGO, graphics, grDevices |
| System Requirements | |
| URL | |
| Bug Reports | https://github.com/biomod-lih/consICA/issues |
See More
| Suggests | knitr, BiocStyle, rmarkdown, testthat, Seurat |
| 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 | consICA_2.5.0.tar.gz |
| Windows Binary (x86_64) | consICA_2.5.0.zip |
| macOS Binary (x86_64) | consICA_2.5.0.tgz |
| macOS Binary (arm64) | |
| Source Repository | git clone https://git.bioconductor.org/packages/consICA |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/consICA |
| Bioc Package Browser | https://code.bioconductor.org/browse/consICA/ |
| Package Short Url | https://bioconductor.org/packages/consICA/ |
| Package Downloads Report | Download Stats |