R for Reproducible Scientific Analysis

Apr 2-3, 2019

9:00 am - 4:30 pm

Instructors: Lucas Lochovsky, Minji Kim, Ravi Pandey, Dave Mellert, Aaron Zhang, Samir Amin, Sue McClatchy

Helpers: Haitham Ashoor, Harshpreet Chandok

General Information

Where: Holt Conference Room, 10 Discovery Dr, Farmington, CT. Get directions with OpenStreetMap or Google Maps.

When: Apr 2-3, 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.). They should have a few specific software packages installed (listed below). on.

Code of Conduct: Everyone who participates is required to conform to the Code of Conduct.

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 susan.mcclatchy@jax.org for more information.


Tuesday, Apr 2

Before Pre-Workshop Survey
09:00 Workshop Overview
09:30 Introduction to R and RStudio
10:25 Project Management With RStudio
10:45 Coffee
11:00 Seeking Help
11:20 Data Structures
12:30 Lunch break
13:30 Exploring Data Frames
14:15 Subsetting Data
15:15 Coffee
15:30 Control Flow
16:25 Wrap-up
16:30 End

We will use this collaborative document for chatting, taking notes, and sharing URLs and bits of code.


Programming in R


To participate in a 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.


Video Tutorial

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.


Video Tutorial

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.