R/Medicine 2018

September 7-8 2018, New Haven, CT

Brought to you by the Yale School of Public Health Biostatistics Department and the R Consortium


The goal of the R/Medicine conference is to promote the use of the R programming environment and the R ecosystem in medical research and clinical practice. R, the open source language for statistical computing and data visualization, has also become an effective tool for enabling reproducible research and the communication of scientific knowledge. In addition to showcasing novel tools, algorithms and methods for analyzing medical and clinical data. We hope the conference will provide a forum for collaboration within the community.

Conference talks will address the use of R in medical applications from Phase I clinical trial design through the analysis of the efficacy of medical therapies in public use. Topic areas for R/Medicine include: clinical trial design, the analysis of clinical trial data, personalized medicine, the analysis of patient records, the analysis of genetic data, the visualization of medical data, and reproducible research.

Note that topics related to drug discovery and PK/PD modeling will likely be the focus of the upcoming R/Pharma conference.



The Omni Hotel 155 Temple Street New Haven, CT

Lodging and Dining

For lodging, click the following link to the Omni Hotel.

The conference will go from 7am to 5pm daily. Breakfast, lunch, and snacks will be provded on both days. There will be a reception on Friday from 5pm to 6:30 pm where food and drinks will be served.

The Omni Hotel does serve dinner in its rooftop restaurant. If you would like to venture out a little further the following restaurants are recommended.

Restaurant Address Phone Type of food
Olea 39 High Street 203-780-8925 Spanish, vegetarian friendly
Zinc 964 Chapel Street 203-624-0507 American, contemporary
Union League Cafe 1032 Chapel Street 203-562-4299 French, contemporary
Barcelona 155 Temple Street 203-848-3000 Mediterranean, European, Spanish
Claire's Corner Copia 1000 Chapel Street 203-562-3888 American cafe, kosher, vegetarian, vegan friendly
Atticus Bookstore and Cafe 1082 Chapel Street 203-776-4040 American
Prime 16 172 Temple Street 203-782-1616 American, pub
Louis' Lunch 263 Crown Street 203-562-5507 American, the first hamburger
Shake Shack 986 Chapel Street 203-747-8483 American, fast food
Mecha Noodle 201 Crown Street 203-691-9671 Japanese, Vietnamese
Chipotle Mexican Grill 900 Chapel Street 203-785-0799 Mexican
Starbucks 1068 Chapel Street 203-624-3361 Coffee and tea
Frank Pepe Pizzeria Napoletana 157 Wooster Street 203-865-5762 Pizza
Consiglio's 165 Wooster Street 203-865-4489 Italian, vegetarian friendly



Time Speaker Affiliation Title
7:00 - 8:00 Breakfast
8:00 - 10:00 Mine Cetinkaya-Rundel RStudio Shiny Essentials
10:00 - 10:30 Break
10:30 - 10:40 Michael Kane Yale University Opening Remarks
10:40 - 11:20 Rob Tibshirani Stanford University How many units of platelets will the Stanford Hospital need tomorrow?
11:20 - 11:40 Nathaniel Phillips Roche FFTrees: How to create extremely simple, transparent, predictive decision algorithms for both machine learning and clinical decision applications
11:40 - 12:00 Peter Higgins University of Michigan Developing Random Forest Models for Medication Response and Implementation in the Epic EMR
12:00 - 1:00 Lunch
1:00 - 1:20 Max Kuhn RStudio tidymodels: a collection of opinionated modeling packages
1:20 - 1:40 Remi Besson Ecole Polytechnique Optimization of a Sequential Decision Making Problem for a Disease Diagnostic Application
1:40 - 2:00 Xinyue Li Yale University Visualizing and Analyzing Circadian Rythms of Infants via Activity Data
2:00 - 2:20 Steven Schwager and Jason Mezey Medidata Solutions and Cornell University Developing Analytical Software for Clinical Trials with R
2:20 - 2:30 Joseph Chou Harvard University Machine learning analysis of maternal pregnancy clinical notes to predict newborns at risk for neonatal abstinence syndrome
2:30 - 3:00 Break
3:00 - 3:40 Michael Lawrence Genentech Genomic Data Analysis with R and Bioconductor
3:40 - 4:00 Eran Bellin Montefiore How to Ask and Answer your Research Question using Electronic Data System data
4:00 - 4:20 Emily Zabor Memorial Sloan Kettering Cancer Center Teaching Survival Analysis to Clinical Collaborators
4:20 - 4:30 Peter Higgins University of Michigan From REDCap data to NIH Enrollment Tables
4:30 - 4:40 Stephan Kadauke University of Pennsylvania Teaching Reproducible Clinical Data Analysis to Medical Doctors
5:00 - 6:30 Reception


Time Speaker Affiliation Title
7:00 - 8:00 Breakfast
8:00 - 10:00 Tutorial Ben Goodrich An introduction to Bayesian inference in medicine using Stan
10:00 - 10:30 Break
10:30 - 11:10 Harlan Krumholz Yale University Dream Crazy: Imagine the Possibilities of Data Science in Medicine
11:10 - 11:30 Chris Kennedy U.C. Berkeley Varimpact: exploratory variable importance integrating causal inference and machine learning
11:30 - 11:50 Chinonyerem Madu Children’s Hospital of Philadelphia Using R to Automate the Investigation of Pediatric Health Disparities
11:50 - 12:00 Madeleine Gastonguay Metrum Research Group Development of an Open and General PBPK Model to Predict Maternal-Fetal Exposures for Drugs Metabolized by CYP Isoenzymes
12:00 - 12:20 Jacqueline Buros Novik Icahn School of Medicine at Mount Sinai Is It Working? Ongoing Evaluation of Drug Efficacy with Joint Models
12:30 - 1:30 Lunch
1:30 - 1:50 Jennifer Thompson Vanderbilt University The Life of a Reproducible Project in R
1:50 - 2:10 Denise Esserman Yale University Reproducible Clinical Trial Design for Patient Centered Outcomes Research (PCORI)
2:10 - 2:30 Keaven Anderson Merck Traceable and reproducible use of R for Analysis and Reporting under regulated environment
2:30 - 3:00 Break
3:00 - 3:40 Victoria Stodden University of Illinois at Urbana-Champaign Computational Reproducibility in Medical Research: Toward Open Code and Data
3:40 - 4:00 Elizabeth Claus Yale University Obstacles to Open Science: A Case Study with the Low-Grade Glioma Registry
4:00 - 4:20 Raymond Balise The University of Miami A Web App to Visualize Cancer Risk Factors for 900+ Neighborhoods in Florida - ShinyNeighborhood
4:20 - 4:50 Beth Atkinson, Joseph Chou, Peter Higgins, Stephan Kadauke, Chinonyerem Madu, and Jack Wasey Roundtable Discussion: Bridging the Two Cultures
5:00 - Drinks offsite


If you are interested in sponsoring the conference, you may either contact us at r-medicine@protonmail.com or you can register as a sponsor using the Registration link. Sponsorship price is $5,000 and includes two tickets to the conference, a table at the conference furnished with 2 chairs and power setup in a location that will attract attended traffic, and your corporate logo listed on the conference website and conference program.


  • Beth Atkinson, The Mayo Clinic
  • Denise Esserman, Yale University (Program Chair)
  • Michael Kane, Yale University (Conference Chair)
  • Balasubramanian Narasimhan (Naras), Stanford University
  • Joseph Rickert, RStudio
  • Hongyu Zhao, Yale University


Questions, comments, and concerns may be directed to r-medicine@protonmail.com

R / Medicine is dedicated to providing a harassment-free conference experience for everyone regardless of gender, sexual orientation, disability or any feature that distinguishes human beings. For more information, please see the R Consortium code of conduct.