June 18th, 2-4pm
Turing Auditorium at Polya Hall
Welcome to the GitHub repository for the Stanford workshop. All the code and packages included in this material is already installed on our RStudio server. You'll simply need to login here with the credentials provided to you at the workshop.
You'll be able to copy-paste all of the code provided here directly into RStudio.
- Login at rstudio.ropensci.org
Note: Server is not turned on at all times. However you should be able to install packages locally at any time.
| Topic | Time |
|---|---|
| Introduction to reproducibility - web page Ciera Martinez | 14:00 - 15:00 |
| Introduction to rOpenSci slides | 15: 15:15 |
| rOpenSci demos 1 Biodiversity records, taxonomic name resolution, climate mapping | 15:15-15:35 |
| 1. Niche modeling (rgbif) | |
| 2. Fixing taxonomic names (taxize) | |
| 3. Making a phylogeny directly from species names. (taxize) | |
| 4. NOAA climate data | |
| 5. Mapping occurrence data | |
| 6. IPCC climate data | Not covered today |
| rOpenSci demos 2 Reproducible workflows, sharing and reusing data and analyses slides | 15:35 - 15:50 |
| 7. How to acquire and deposit data in R | |
| 8. How to use figshare from R | Not covered today |
| 9. The gbif example as a reproducible document | |
| Wrap up, questions and discussion | 15:50 → ? |
We welcome any feedback on our workshops, tools, suggestions for new packages, and any collaborations you might have in mind. Please get in touch.