dominatR
Feature Dominance-based R Package for Genomic Data
Bioconductor version: 3.23 · Package version: 1.0.0
Other Bioconductor versions
devel is the development version; release is the current stable one.
3.24 (devel), 3.23 (release)
dominatR is an R package for quantifying and visualizing feature dominance in datasets. dominatR applies concepts drawn from physics such as center of mass and shannon's entropy to effectively visualize features (e.g. genes) that are present within a specific context or condition. The package integrates, dataframes, matrices and SummerizedExperiment objects and is able to perform common genomic normalization methods. The key aspect is the generation of plots that serve to highlight context-relevant feature dominance.
Installation
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("dominatR")Details
| Maintainer | Simon Lizarazo <silizarazoch@gmail.com> |
| Author | Simon Lizarazo [aut, cre] (ORCID: <https://orcid.org/0009-0001-8974-6225>), Ethan Chen [aut], Rajendra K C [aut], Kevin Van Bortle [aut, cph] |
| License | MIT + file LICENSE |
| URL | https://github.com/VanBortleLab/dominatR, https://vanbortlelab.github.io/dominatR/ |
| Bug Reports | https://github.com/VanBortleLab/dominatR/issues |
| Source branch | RELEASE_3_23 |
| Build report | Bioconductor build system, r-universe |
| biocViews | Classification, GeneExpression, Normalization, Software, Visualization |
| Package Short Url | https://bioconductor.org/packages/dominatR/ |
Citation
From within R, enter citation("dominatR"):
Simon Lizarazo, Ethan Chen, Rajendra K C, Kevin Van Bortle. dominatR: Feature Dominance-based R Package for Genomic Data. doi:10.18129/B9.bioc.dominatR, R package version 1.0.0, https://bioconductor.org/packages/dominatR.
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 | dominatR_1.0.0.tar.gz |
| Windows binary (x86_64) | dominatR_1.0.0.zip |
| macOS binary (arm64) | dominatR_1.0.0.tgz |
| macOS binary (x86_64) | dominatR_1.0.0.tgz |
Dependencies
Depends: R (>= 4.5.0)
Imports: scales, ggnewscale, SummarizedExperiment, dplyr, rlang, ggforce, geomtextpath, ggplot2
Suggests: BiocStyle, airway, tidyverse, knitr, rmarkdown, testthat (>= 3.0.0), dominatRData