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<!-- is generated from README.Rmd. Please edit that file --> # planttfhunter <img src="man/figures/logo.png" align="right" height="139" /> <!-- badges: start --> [![GitHub issues](]( [![Lifecycle: stable](]( [![R-CMD-check-bioc](]( [![Codecov test coverage](]( <!-- badges: end --> 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: ``` r if (!requireNamespace("BiocManager", quietly = TRUE)) { install.packages("BiocManager") } BiocManager::install("planttfhunter") ``` And the development version from [GitHub]( with: ``` r 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**. ``` r print(citation('planttfhunter'), bibtex = TRUE) #> #> To cite package 'planttfhunter' in publications use: #> #> Almeida-Silva F, Van de Peer Y (2022). _planttfhunter: Identification #> and classification of plant transcription factors_. R package version #> 0.99.0, <>. #> #> A BibTeX entry for LaTeX users is #> #> @Manual{, #> title = {planttfhunter: Identification and classification of plant transcription factors}, #> author = {Fabrício Almeida-Silva and Yves {Van de Peer}}, #> year = {2022}, #> note = {R package version 0.99.0}, #> url = {}, #> } ``` 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 *[usethis](*, *[remotes](*, and *[rcmdcheck](* customized to use [Bioconductor’s docker containers]( and *[BiocCheck](*. - Code coverage assessment is possible thanks to [codecov]( and *[covr](*. - The [documentation website]( is automatically updated thanks to *[pkgdown](*. - The documentation is formatted thanks to *[devtools](* and *[roxygen2](*. This package was developed using *[biocthis](*.