Lectures for the BIOS-524 course

Slides for the online BIOS 524 Biostatistical Computing course, R part. Previous version for in person teaching is available at BIOS-524 2023 website

Week 1

• 10_Getting_started - R overview, installation, getting help
• 11_RStudio - RStudio installation, interface, settings, help
• 12_Functions_packages - working with functions and packages in R
• 13_Data - loading and saving data in R

Week 2

• 21_R_basics - variables, assignment operator, matrices, variable types, factors, conditional and logical operators, helper functions
• 22_R_data_frames - data frames, subsetting, helper functions. Lists, accessing elements
• 23_R_basics - summary statistics, if-else statements, loops, apply family of functions
• 23_Text - working with text data, concatenation, regular expressions, pattern substitution, string formatting, stringr package
• 24_R_graphics - base R graphics, common plot functions, saving plots, base graphics cheatsheet

Week 3

• 31_Unix - Introduction to Unix and command line, navigating file system, working with files

Week 5

• 51_RMarkdown - Introduction to RMarkdown, text formatting, tables, images, document settings using YAML

• 52_Bibliography - Reference management with BibTex, formatting references in RMarkdown

• 53_MathJax - formula formatting with MathJax and including them in RMarkdown

Week 6

• 61_Tidyverse_dplyr - Tidyverse packages, principles of tidy data, reading data, tibbles substituting data frames, wide/long data format, data manipulation with dplyr, the pipe operator

Week 7

• 71_Tidyverse_ggplot2 - Anscombe's quartet, grammar of graphics, ggplot2 syntax and basic components (data, aesthetics, geometries), splitting plots, visual themes, saving plots, graphics editors

Week 8

• 81_Packages - creating functions and R packages. Arguments, recursive functions. Package's building blocks, DESCRIPTION

• 82_Packages - documenting your package with roxygen2, NAMESPACE file, vignettes, building and debugging your package, including datasets

• 83_Optimization_best_practices - timing and optimizing code, parallelization, code profiling

Notes

• Online Course Development Expectations for Faculty Developers, https://docs.google.com/document/d/1SSpIWrZeHu-rynreN904-MluEaPnCpWg52NeKqsHnHY/edit

• Curriculum Development 6-Months Instructional Design Process, https://docs.google.com/document/d/1ukOEk6jVHPLS0ALptuJtguhYHRLaaW3fwMh2IRz8pWo/edit

• SAS OnDemand Academics, https://welcome.oda.sas.com/

• SAS video tutorials, https://video.sas.com/category/videos/how-to-tutorials

SAS_9.4_CertPrep

https://www.linkedin.com/learning/search?keywords=SAS%C2%AE%209.4%20Cert%20Prep&u=76209018

• SAS® 9.4 Cert Prep: Part 01 SAS Programming Essentials
• SAS® 9.4 Cert Prep: Part 02 Accessing Data
• SAS® 9.4 Cert Prep: Part 03 Exploring and Validating Data

LWSP4R

https://learn.sas.com/mod/resource/view.php?id=826

ESP4R

https://learn.sas.com/pluginfile.php/7750/mod_scormddl/content/7862/esp4rsetup_oda.zip