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coRdon

Codon Usage Analysis and Prediction of Gene Expressivity

Bioconductor version: 3.23 · Package version: 1.30.0

Tool for analysis of codon usage in various unannotated or KEGG/COG annotated DNA sequences. Calculates different measures of CU bias and CU-based predictors of gene expressivity, and performs gene set enrichment analysis for annotated sequences. Implements several methods for visualization of CU and enrichment analysis results.

Installation

if (!require("BiocManager", quietly = TRUE))
    install.packages("BiocManager")

BiocManager::install("coRdon")

Details

MaintainerAnamaria Elek <anamariaelek@gmail.com>
AuthorAnamaria Elek [cre, aut], Maja Kuzman [aut], Kristian Vlahovicek [aut]
LicenseArtistic-2.0
URLhttps://github.com/BioinfoHR/coRdon
Bug Reportshttps://github.com/BioinfoHR/coRdon/issues
Downloads rank678
Source branchRELEASE_3_23
biocViewsBiomedicalInformatics, GeneExpression, GenePrediction, GeneSetEnrichment, Genetics CellBiology, ImmunoOncology, KEGG, Metagenomics, Pathways, Software, Visualization

Documentation

Download

Follow the installation instructions to use this package in your R session.

Source packagecoRdon_1.30.0.tar.gz
Windows binary (x86_64)coRdon_1.30.0.zip
macOS binary (arm64)coRdon_1.30.0.tgz
macOS binary (x86_64)coRdon_1.30.0.tgz
Dependencies

Depends: R (>= 3.5)

Imports: methods, stats, utils, Biostrings, Biobase, dplyr, stringr, purrr, ggplot2, data.table

Suggests: BiocStyle, testthat, knitr, rmarkdown

Reverse dependencies

Imports Me (1): vhcub