wavFeatExt
This is the development version of wavFeatExt; for the stable release version, see wavFeatExt.
All Bioconductor versions of wavFeatExt
3.24 (devel), 3.23 (release)
Wavelet-based Feature Extraction for Copy-number Alteration Data
Bioconductor version: 3.24 · Package version: 1.1.0
Provides tools for simulating copy-number alteration (CNA) profiles, applying a non-decimated Haar wavelet transform to genomic signals, and extracting wavelet-derived features for use in supervised learning. Multiple machine learning methods including lasso and elastic-net regularisation, random forest, partial least squares, neural networks and k-nearest neighbours are implemented to train predictive models from genomic feature vectors. The workflow enables end-to-end analysis from CNA simulation to feature extraction and classification.
Author: Maharani Ahsani Ummi [aut, cre], Arief Gusnanto [aut]
Maintainer: Maharani Ahsani Ummi <maharaniahsani at itb.ac.id>
Citation
From within R, enter citation("wavFeatExt"):
Maharani Ahsani Ummi, Arief Gusnanto. wavFeatExt: Wavelet-based Feature Extraction for Copy-number Alteration Data. doi:10.18129/B9.bioc.wavFeatExt, R package version 1.1.0, https://bioconductor.org/packages/wavFeatExt.
Generated from the package metadata; it may differ from the package's own citation.
Installation
To install this package, start R (version "4.6") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
## The following initializes the development version of Bioconductor
BiocManager::install(version = "devel")
BiocManager::install("wavFeatExt")For older versions of R, please refer to the appropriate Bioconductor release.
Details
| Version | 1.1.0 |
| License | GPL-3 |
| URL | https://github.com/maharaniau/wavFeatExt |
| Bug Reports | https://github.com/maharaniau/wavFeatExt/issues |
| Last updated | 2026-04-28 |
| In Bioconductor since | BioC 3.23 (R-4.6) (less than a year) |
| Downloads rank | 2357 of 2,456 |
| Source branch | devel |
| Build report | Bioconductor build system, r-universe |
| biocViews | Classification, CopyNumberVariation, FeatureExtraction, GenomicVariation, Software |
| Package Short Url | https://bioconductor.org/packages/wavFeatExt/ |
Documentation
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("wavFeatExt")| wavFeatExt: Wavelet-based Feature Extraction for Copy-number Alteration Data | HTML | R Script |
| Reference Manual | ||
| NEWS | Text |
Download
Follow the installation instructions to use this package in your R session.
| Source package | wavFeatExt_1.1.0.tar.gz |
| Windows binary (x86_64) | wavFeatExt_1.1.0.zip |
| macOS binary (arm64) | wavFeatExt_1.1.0.tgz |
| macOS binary (x86_64) | wavFeatExt_1.1.0.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/wavFeatExt |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/wavFeatExt |
| Package Downloads Report | Download Stats |
Dependencies
Depends: R (>= 4.5)
Imports: DNAcopy, wavethresh, MASS, randomForest, glmnet, pROC, neuralnet, e1071, class, caret, ica, stats, graphics, utils, pls, matrixStats
Suggests: BiocStyle, knitr, rmarkdown, testthat (>= 3.0.0)