Oct 13-14, 2019
9:00 am - 4:00 pm
Instructors: Katherine Simeon, Christine Swanson
Helpers:
Software Carpentry aims to help researchers get their work done in less time and with less pain by teaching them basic research computing skills. This hands-on workshop will cover basic concepts and tools, including program design, version control, data management, and task automation. Participants will be encouraged to help one another and to apply what they have learned to their own research problems.
For more information on what we teach and why, please see our paper "Best Practices for Scientific Computing".
Who: The course is aimed at graduate students and other researchers. You don't need to have any previous knowledge of the tools that will be presented at the workshop.
Where: 100 Nicolls Road Stony Brook, NY 11794. Get directions with OpenStreetMap or Google Maps.
When: Oct 13-14, 2019. Add to your Google Calendar.
Requirements: Participants must bring a laptop with a Mac, Linux, or Windows operating system (not a tablet, Chromebook, etc.) that they have administrative privileges on. They should have a few specific software packages installed (listed below).
Code of Conduct: Everyone who participates in Carpentries activities is required to conform to the Code of Conduct. This document also outlines how to report an incident if needed.
Accessibility: We are committed to making this workshop accessible to everybody. The workshop organizers have checked that:
Materials will be provided in advance of the workshop and large-print handouts are available if needed by notifying the organizers in advance. If we can help making learning easier for you (e.g. sign-language interpreters, lactation facilities) please get in touch (using contact details below) and we will attempt to provide them.
Contact: Please email katherine@rladies.org or christineswanson@ufl.edu for more information.
Please be sure to complete these surveys before and after the workshop.
| Before | Pre-workshop survey |
| 08:30 | Help with software installation (if needed) |
| 09:00 | Introductions |
| 09:05 | Introduction to R and R Studio |
| 10:00 | Project management with R Studio |
| 10:30 | Seeking help |
| 10:45 | Morning break |
| 11:00 | Exploring data frames |
| 11:30 | Subsetting data |
| 12:00 | Lunch |
| 13:00 | Review and data subsetting exercises |
| 13:30 | Control flow |
| 14:35 | Afternoon break |
| 14:50 | Creating publication-quality graphics with ggplot2 |
| 16:00 | END |
| 09:00 | Review from Sunday |
| 09:15 | Functions explained |
| 10:15 | Writing data |
| 10:35 | Break |
| 10:50 | Splitting and combining data frames with plyr |
| 11:50 | Data manipulation practice |
| 12:00 | Lunch |
| 13:00 | Data manipulation with dplyr |
| 14:00 | Data manipulation with tidyr |
| 14:45 | Break |
| 15:00 | Reproducible research |
| 15:55 | Post-workshop Survey |
| 16:00 | END |
To participate in a Software Carpentry workshop, you will need access to the software described below. In addition, you will need an up-to-date web browser.
We maintain a list of common issues that occur during installation as a reference for instructors that may be useful on the Configuration Problems and Solutions wiki page.
R is a programming language that is especially powerful for data exploration, visualization, and statistical analysis. To interact with R, we use RStudio.
Install R by downloading and running this .exe file from CRAN. Also, please install the RStudio IDE. Note that if you have separate user and admin accounts, you should run the installers as administrator (right-click on .exe file and select "Run as administrator" instead of double-clicking). Otherwise problems may occur later, for example when installing R packages.
Install R by downloading and running this .pkg file from CRAN. Also, please install the RStudio IDE.
You can download the binary files for your distribution
from CRAN. Or
you can use your package manager (e.g. for Debian/Ubuntu
run sudo apt-get install r-base and for Fedora run
sudo dnf install R). Also, please install the
RStudio IDE.