In almeidasilvaf/tfhunter: Identification and classification of plant transcription factors

knitr::opts_chunk$set(
    collapse = TRUE,
    comment = "#>",
    fig.path = "man/figures/README-",
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planttfhunter

The goal of planttfhunter is to identify plant transcription factors from protein sequence data and classify them into families and subfamilies using the classification scheme implemented in PlantTFDB.

Installation instructions

Get the latest stable R release from CRAN. Then install planttfhunter from Bioconductor using the following code:

if (!requireNamespace("BiocManager", quietly = TRUE)) {
    install.packages("BiocManager")
}

BiocManager::install("planttfhunter")

And the development version from GitHub with:

BiocManager::install("almeidasilvaf/planttfhunter")

Citation

Below is the citation output from using citation('planttfhunter') in R. Please run this yourself to check for any updates on how to cite planttfhunter.

print(citation('planttfhunter'), bibtex = TRUE)

Please note that the planttfhunter project was only made possible thanks to many other R and bioinformatics software authors, which are cited either in the vignettes and/or the paper(s) describing this package.

Code of Conduct

Please note that the planttfhunter project is released with a Contributor Code of Conduct. By contributing to this project, you agree to abide by its terms.

Development tools

• Continuous code testing is possible thanks to GitHub actions through r BiocStyle::CRANpkg('usethis'), r BiocStyle::CRANpkg('remotes'), and r BiocStyle::CRANpkg('rcmdcheck') customized to use Bioconductor's docker containers and r BiocStyle::Biocpkg('BiocCheck').
• Code coverage assessment is possible thanks to codecov and r BiocStyle::CRANpkg('covr').
• The documentation website is automatically updated thanks to r BiocStyle::CRANpkg('pkgdown').
• The documentation is formatted thanks to r BiocStyle::CRANpkg('devtools') and r BiocStyle::CRANpkg('roxygen2').

This package was developed using r BiocStyle::Biocpkg('biocthis').

almeidasilvaf/tfhunter documentation built on March 19, 2023, 8:53 p.m.