netboost
Network Analysis Supported by Boosting
Bioconductor version: 3.24 · Package version: 2.21.5
Other Bioconductor versions
devel is the development version; release is the current stable one.
3.24 (devel), 3.23 (release)
Boosting-supported network analysis for high-dimensional omics data, implementing a three-step dimension reduction technique. A filter combined with the topological overlap measure first identifies the essential edges of the feature network, sparse hierarchical clustering then groups the selected features into modules, and each module is finally summarised by its first principal components. Subsequent analyses are carried out on these low-dimensional module signals instead of the original data, which makes the method well suited to epigenetics, metabolomics, transcriptomics, and other omics studies. The method is described in Schlosser et al. (2021) <doi:10.1109/TCBB.2020.2983010>.
Installation
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("netboost")Details
| Maintainer | Pascal Schlosser <pascal.schlosser@uniklinik-freiburg.de> |
| Author | Pascal Schlosser [aut, cre] (ORCID: <https://orcid.org/0000-0002-8460-0462>), Jochen Knaus [aut, ctb], Alex Waterhölter [aut, ctb] |
| License | GPL-3 |
| URL | https://bioconductor.org/packages/release/bioc/html/netboost.html |
| Bug Reports | mailto:pascal.schlosser@uniklinik-freiburg.de |
| Source branch | devel |
| Build report | Bioconductor build system, r-universe |
| biocViews | BiomedicalInformatics, Clustering, DimensionReduction, Epigenetics, GraphAndNetwork, Metabolomics, Network, Software, StatisticalMethod, Transcriptomics |
| Package Short Url | https://bioconductor.org/packages/netboost/ |
Citation
From within R, enter citation("netboost"):
Pascal Schlosser, Jochen Knaus, Alex Waterhölter. netboost: Network Analysis Supported by Boosting. doi:10.18129/B9.bioc.netboost, R package version 2.21.5, https://bioconductor.org/packages/netboost.
Generated from the package metadata; it may differ from the package's own citation.
Documentation
Download
Follow the installation instructions to use this package in your R session.
| Source package | netboost_2.21.5.tar.gz |
| Windows binary (x86_64) | netboost_2.21.5.zip |
| macOS binary (arm64) | netboost_2.21.5.tgz |
| macOS binary (x86_64) | netboost_2.21.5.tgz |
Dependencies
Depends: R (>= 4.0.0)
Imports: Rcpp, RcppParallel, parallel, grDevices, graphics, stats, utils, dynamicTreeCut, WGCNA, impute, colorspace, methods
LinkingTo: Rcpp, RcppParallel