April 8-24, 2025
T/Th 3:30-5:30pm
Instructors: James Van Leuven, Jeremiah Chapleski
Data Carpentry develops and teaches workshops on the fundamental data skills needed to conduct research. Its target audience is researchers who have little to no prior computational experience, and its lessons are domain specific, building on learners' existing knowledge to enable them to quickly apply skills learned to their own research. 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 "Good Enough 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: University of Idaho Moscow Campus IRIC Room 352. Get directions with OpenStreetMap or Google Maps.
When: April 8-24, 2025. 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).
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 jvanleuven@uidaho.edu or jchapleski@uidaho.edu for more information.
Roles: To learn more about the roles at the workshop (who will be doing what), refer to our Workshop FAQ.
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.
Please be sure to complete these surveys before and after the workshop.
| Before starting | Pre-workshop survey |
| 3:30 | Project Organization and Management |
| 4:30 | Break |
| 4:45 | Introduction to the Command Line |
| 5:20 | Wrap-up |
| 5:30 | END |
| 3:30 | Introduction to the Command Line continued |
| 4:30 | Break |
| 4:45 | Data Wrangling and Processing |
| 5:20 | Wrap-up |
| 5:30 | END |
| 3:30 | Data Wrangling and Processing continued |
| 4:30 | Break |
| 4:45 | Data Wrangling and Processing continued |
| 5:20 | Wrap-up |
| 5:30 | END |
| 3:30 | Introduction to Cloud Computing for Genomics |
| 4:30 | Break |
| 4:45 | Visualizing genomic data |
| 5:20 | Wrap-up |
| 5:30 | END |
| 3:30 | Visualizing genomic data continued |
| 4:30 | Break |
| 4:45 | Visualizing genomic data continued |
| 5:20 | Wrap-up |
| 5:30 | END |
| 3:30 | Visualizing genomic data continued |
| 4:30 | Break |
| 4:45 | Visualizing genomic data continued |
| 5:20 | Wrap-up |
| 5:30 | Post-workshop survey |
To participate in a Data 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.
Instructions for R installation on various Linux platforms (debian,
fedora, redhat, and ubuntu) can be found at
<https://cran.r-project.org/bin/linux/>. These will instruct you to
use your package manager (e.g. for Fedora run
sudo dnf install R and for Debian/Ubuntu, add a ppa
repository and then run sudo apt-get install r-base).
Also, please install the
RStudio IDE.
The setup instructions for the Data Carpentry Genomics workshops can be found at the workshop overview site
.