Reproducibility in Plant Pathology

This repository contains the data and code for our paper:

Sparks, A.H., Del Ponte, E.M., Everhart, S., Foster, Z., Grünwald, N. (YYYY). Title of paper. Name of journal/book https://doi.org/xxx/xxx

Our pre-print is online here:

Authors, (YYYY). Title of paper. Name of journal/book, Accessed 20 May 2019. Online at https://doi.org/xxx/xxx

How to cite

Please cite this compendium as:

Sparks, A.H., Del Ponte, E.M., Everhart, S., Foster, Z.S.L., Grünwald, N. (2019). Compendium of R code and data for ‘Status and Best Practices for Reproducible Research In Plant Pathology’. Accessed 20 May 2019. Online at https://doi.org/10.5281/zenodo.1250665

How to download or install

The R package

This repository is organized as an R package. There is one R function, doi2bib(), that is used in this repository, along with a bibliography file of the articles that were examined that are located in inst/extdata directory. We have used the R package structure to help manage dependencies, to take advantage of continuous integration for automated code testing and for file organisation.

You can download the compendium as a zip from from this URL: https://github.com/openplantpathology/Reproducibility_in_Plant_Pathology/archive/master.zip

Or you can install this compendium as an R package, Reproducibility.in.Plant.Pathology, from GitHub with:

if (!require("remotes"))
  install.packages("remotes")
remotes::install_github("openplantpathology/Reproducibility_in_Plant_Pathology"
)

Once the download is complete, open the Reproducibility_in_Plant_Pathology.Rproj in RStudio to begin working with the package and compendium files.

Meta

Code: MIT year: 2019, copyright holder: Adam H Sparks

Data: CC-0 attribution requested in reuse

Licenses

Code : See the DESCRIPTION file

Data : CC-0 attribution requested in reuse

Adam H Sparks, Associate Professor, Centre for Crop Health
University of Southern Queensland
Toowoomba, Queensland 4350

+61 (7) 4831 1948 [email protected]

https://adamhsparks.netlify.com/