microfunk

The goal of microfunk is to …

Installation instructions

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

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

BiocManager::install("microfunk")

And the development version from GitHub with:

BiocManager::install("juditfarreb/microfunk")

Example

This is a basic example which shows you how to solve a common problem:

library("microfunk")
## basic example code

What is special about using README.Rmd instead of just README.md? You can include R chunks like so:

summary(cars)
#>      speed           dist       
#>  Min.   : 4.0   Min.   :  2.00  
#>  1st Qu.:12.0   1st Qu.: 26.00  
#>  Median :15.0   Median : 36.00  
#>  Mean   :15.4   Mean   : 42.98  
#>  3rd Qu.:19.0   3rd Qu.: 56.00  
#>  Max.   :25.0   Max.   :120.00

You’ll still need to render README.Rmd regularly, to keep README.md up-to-date.

You can also embed plots, for example:

In that case, don’t forget to commit and push the resulting figure files, so they display on GitHub!

Citation

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

print(citation('microfunk'), bibtex = TRUE)
#> Warning in citation("microfunk"): could not determine year for 'microfunk' from
#> package DESCRIPTION file
#> To cite package 'microfunk' in publications use:
#> 
#>   Farré-Badia J (????). _microfunk: What the Package Does (One Line,
#>   Title Case)_. R package version 0.99.0,
#>   https://microbialgenomics-irsicaixaorg.github.io/microfunk/,
#>   <https://github.com/MicrobialGenomics-IrsicaixaOrg/microfunk>.
#> 
#> A BibTeX entry for LaTeX users is
#> 
#>   @Manual{,
#>     title = {microfunk: What the Package Does (One Line, Title Case)},
#>     author = {Judit Farré-Badia},
#>     note = {R package version 0.99.0, 
#> https://microbialgenomics-irsicaixaorg.github.io/microfunk/},
#>     url = {https://github.com/MicrobialGenomics-IrsicaixaOrg/microfunk},
#>   }

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

Development tools