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Introduction to R Workshop

Overview

This repository contains materials for an introductory R programming workshop, focusing on data analysis in bioinformatics and health sciences. The workshop is designed as a 4-day course with 2-hour sessions each day, taking participants from basic R programming concepts through to practical data analysis techniques.

Instructor

Eren Ada, PhD
Research Associate in Immunology
Harvard Medical School
Email: eren_ada@hms.harvard.edu

Location & Schedule

TMEC 333 Conference Room
Tosteson Medical Education Center
260 Longwood Ave
Boston, MA 02115

Workshop Dates:

  • Day 1: February 11, 10:00 AM - 12:00 PM
  • Day 2: February 13, 10:00 AM - 12:00 PM
  • Day 3: February 18, 10:00 AM - 12:00 PM
  • Day 4: February 20, 10:00 AM - 12:00 PM

Website

All workshop materials are available on our course website: https://hms-immunology.github.io/intro-R-workshop/

Course Structure

Day 1: R Basics and Data Structures (2 hours)

  • Introduction to R and RStudio
  • Objects and Variables
  • Vectors and Matrices
  • Practice Exercises

Day 2: Working with Data (2 hours)

  • Working with Data Frames
  • Data Manipulation with dplyr and tidyr
  • Practice with Real-world Examples

Day 3: Data Visualization (2 hours)

  • Introduction to ggplot2
  • Advanced Plotting Techniques
  • Creating Publication-Ready Figures
  • Extended Practice Sessions

Day 4: Statistical Analysis (2 hours)

  • Basic Statistical Concepts
  • Hypothesis Testing
  • Advanced Topics (Optional)
  • Workshop Wrap-up and Q&A

Materials Format

Each lesson is provided in multiple formats:

  • Markdown (.md) files for direct viewing on the website
  • R Markdown (.Rmd) files for downloading and running interactively in RStudio
  • HTML rendered versions for local viewing

Prerequisites

Before attending the workshop, please ensure you have:

  1. A laptop with R and RStudio installed
  2. Basic understanding of programming concepts (helpful but not required)
  3. Followed our setup instructions

Repository Structure

intro-R-workshop/
├── class-materials/          # Main course content
│   ├── r_basics.Rmd         # Day 1: R basics
│   ├── objects-variables.Rmd # Day 1: Objects
│   ├── vectors-matrices.Rmd  # Day 1: Data structures
│   ├── data-frames.Rmd      # Day 2: Data frames
│   ├── data-manipulation.Rmd # Day 2: Data manipulation
│   ├── data-visualization.Rmd# Day 3: Visualization
│   └── basic-statistics.Rmd  # Day 4: Statistics
├── rendered-html/           # Rendered HTML versions
└── setup.md                # Setup instructions

Daily Schedule

Each day consists of a 2-hour session structured as follows:

Day 1: R Basics and Data Structures (February 11, 10:00 AM - 12:00 PM)

  • 10:00 - 10:30: Introduction to R and RStudio
  • 10:30 - 11:00: Objects and Variables
  • 11:00 - 11:30: Vectors and Matrices
  • 11:30 - 12:00: Practice and Q&A

Day 2: Working with Data (February 13, 10:00 AM - 12:00 PM)

  • 10:00 - 10:45: Working with Data Frames
  • 10:45 - 11:30: Data Manipulation (dplyr/tidyr)
  • 11:30 - 12:00: Practice and Q&A

Day 3: Data Visualization (February 18, 10:00 AM - 12:00 PM)

  • 10:00 - 10:45: Introduction to ggplot2
  • 10:45 - 11:30: Advanced Plotting Techniques
  • 11:30 - 12:00: Visualization Practice

Day 4: Statistical Analysis (February 20, 10:00 AM - 12:00 PM)

  • 10:00 - 10:45: Basic Statistics
  • 10:45 - 11:30: Advanced Topics
  • 11:30 - 12:00: Workshop Wrap-up and Q&A

Getting Started

  1. Visit our course website for the most user-friendly experience
  2. Follow the setup instructions to prepare your computer
  3. Start with Day 1 materials and progress through the course

Contributing

We welcome contributions to improve the workshop materials. Please:

  1. Fork the repository
  2. Create a feature branch
  3. Submit a pull request with your changes

Contact

For questions about the workshop or materials:

Copyright and License

© 2024 Eren Ada, Harvard Medical School. All rights reserved.

This material is licensed under Creative Commons Attribution-ShareAlike 4.0 International License. You are free to:

  • Share — copy and redistribute the material in any medium or format
  • Adapt — remix, transform, and build upon the material for any purpose, even commercially

Under the following terms:

  • Attribution — You must give appropriate credit, provide a link to the license, and indicate if changes were made.
  • ShareAlike — If you remix, transform, or build upon the material, you must distribute your contributions under the same license as the original.

For questions about usage or permissions, please contact eren_ada@hms.harvard.edu

Acknowledgments

This workshop was developed by Eren Ada, PhD at the HMS Immunology Program. We thank all contributors and participants for their valuable feedback and suggestions.