This R package is a collection of microbiome datasets published initially elsewhere. The data is available as TreeSummarizedExperiment
or MultiAssayExperiment
and a list of available dataset can be retrieved via the availableDataSets()
function.
The aim is to provide datasets for teaching, example workflows or comparative efforts. If you have a dataset, which you like to see in this package, please let us know and/or provide a PR for the datasets.
Feel free to contribute. Have a look at how existing datasets are organized and prepared data accordingly. It is also good to get in touch at the earliest convenience to discuss any issues.
Let’s use a git flow kind of approach. Development version should be done against the master
branch and then merged to master
for the next release. (https://guides.github.com/introduction/flow/)
Resources on how data is added to Bioconductor’s ExperimentHub backend and accessed are available from Bioconductor here
Basic steps:
Please note that the microbiomeDataSets project is released with a Contributor Code of Conduct. By contributing to this project, you agree to abide by its terms.