A Grammar of Data Manipulation for Omics Data

The tidies package implements tidy principles as defined in the tidyverse packages to omics-type data classes, with (currently at least), an emphasis on quantitative proteomics data.

Details and examples are provides in the vignette. See also my slides for the EuroBioc2018 conference.

Installation

First, install the Bioconductor dependencies using the BiocManager package, that can be installed from CRAN with install.packages.

if (!requireNamespace("BiocManager", quietly = TRUE))
    install.packages("BiocManager")
BiocManager::install("MSnbase")

In case they aren't installed yet, please install dplyr, tibble and tidyr:

install.packages(c("dplyr", "tidyr", "tibble"))

Or just go agread and install the full tidyverse:

install.packages("tidyverse")

You can now install the tidies package from github with:

BiocManager::install("lgatto/tidies")

Questions

Please ask question, report bugs and suggest improvements by opening a GitHub issue.

Contributing

Contributions to the package are more than welcome. If you want to contribute to this package, you should follow the same conventions as the rest of the functions. Please do get in touch (preferable opening a github issue) to discuss any suggestions.

Please note that this project is released with a Contributor Code of Conduct. By participating in this project you agree to abide by its terms.