R/Medicine 2018

September 7-8, 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


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



Time Speaker Affiliation Title
7:00 - 8:00 Breakfast
8:00 - 10:00 Mine Cetinkaya-Rundel RStudio Shiny Tutorial
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 Medidata Solutions TBA
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 TBA
3:40 - 4:00 Eran Bellin Montefiore How to Ask and Answer your Research Question using Electronic Data System data
4:00 - 4:10 Peter Higgins University of Michigan From REDCap data to NIH Enrollment Tables
4:10 - 4:20 Ahmad Mobin CAMH Trauma-Informed De-escalation Education for Safety- Using R to help improve saftey and care within a Hospital Setting
4:20 - 4:30 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 Stan Stan Tutorial
10:00 - 10:30 Break
10:30 - 11:10 Michael Lawrence Genentech Genomic Data Analysis in the Large with R and Bioconductor
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 - 1:00 Lunch
1:00 - 1:20 Jennifer Thompson Vanderbilt University The Life of a Reproducible Project in R
1:20 - 1:40 Denise Esserman Yale University Reproducible Clinical Trial Design for Patient Centered Outcomes Research (PCORI)
1:40 - 2:00 Keaven Anderson Merck Traceable and reproducible use of R for Analysis and Reporting under regulated environment
2:00 - 2:20 Elizabeth Claus Yale University Obstacles to Open Science: A Case Study with the Low-Grade Glioma Registry
2:20 - 3:00 Break
3:00 - 3:40 Victoria Stodden University of Illinois at Urbana-Champaign TBA
3:40 - 4:00 Raymond Balise The University of Miami A Web App to Visualize Cancer Risk Factors for 900+ Neighborhoods in Florida - ShinyNeighborhood
4:00 - 4:20 Roundtable Discussion Integrating R in Hospitals: From Workstation to Bedside
4:30 - 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 $4,000 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.