sbalci / healthyr_demos

Live R demos

More information on the HealthyR: R for Health Data Science courses, upcoming live demos, clinics, and free resources can be found at https://healthyr.surgicalinformatics.org/

Internal note: the demo bank lives in healthyr_admin.

library(finalfit) - quickly create elegant final results tables and plots

This video covers:

• demographics table
• variable labels
• odds ratio plots

melanoma dataset and R Markdown document (2022-04 folder in this repository)

Presented by Riinu Pius and Ewen Harrison, recorded in April 2022.

bar plots - geom_bar() or geom_col()?

This video covers:

• How to approach a brand new dataset: viewing data, variable names, and counts
• Plotting uncounted, case-level data with geom_bar()
• Summarising data and then plotting aggregated data with geom_col()
• Reordering factors in geom_col()

R Script, including dataset loading (2022-05 folder in this repository)

Presented by Riinu Pius and Ewen Harrison, recorded in May 2022.

Reproducible example - reprex

This video covers:

• Generating dummy/example datasets with tibble()
• Reproducing real dataset issues in an example dataset
• Sharing minimal reproducible examples

R Markdown document including dataset loading (2022-06 folder in this repository)

Presented by Riinu Pius and Mathew Thorpe, Recorded in June 2022.

Create a global map

This video covers:

• Exploring a brand new dataset
• Creating a global map, customised based on your data
• Troubleshooting issues based on mismatched countries

R Script including dataset loading (2022-08 folder in this repository)

Presented by Riinu Pius and Ewen Harrison, Recorded in August 2022.

Reshape Data

This video covers:

• Prepare your data in a format suitable for analysis
• Pivot longer and Pivot wider

R Script including dataset loading (2022-08 folder in this repository)

Presented by Riinu Pius, Ewen Harrison and Sarah Elliot, Recorded in August 2022.

Plot Improvements

This video covers:

• Exploring a new data set
• How to create plots using ggplot()
• Edit plot to create high quality visualisations

R Script including dataset loading (2022-09 folder in this repository)

Presented by Ewen Harrison and Sarah Elliot, Recorded in September 2022.

Stringr

This video covers:

• Using stringr
• Free text manipulation
• Regular Expressions

R Script including dataset loading (2022-10 folder in this repository)

Presented by Ewen Harrison and Sarah Elliot, Recorded in October 2022.

Joining datasets

This video covers:

• *_join() from the tidyverse
• Mutational joins, such as left, right, inner, full
• Anti_join() and semi_join()

R Script including dataset loading (2022-11 folder in this repository)

Presented by Ewen Harrison and Sarah Elliot, Recorded in November 2022.

Table One - finalfit

This video covers:

• Explore a new dataset
• Create a summary table with variables of interest to investigate confounding
• Edit this output to create a publishable table

R Script including dataset loading (2023-03 folder in this repository)

Presented by Ewen Harrison and Sarah Elliot, Recorded in March 2023.

Cleaning Data

This video covers:

• Formatting variables in R
• Working with dates
• Out of range values - summarising, visuals, plotly
• Filter or remove variables

R Script including dataset loading (2023-08 folder in this repository)

Presented by Ewen Harrison, Riinu Pius and Sarah Elliot, Recorded in August 2023.

Automatic Parameterised Reports

This video covers:

• Producing multiple PDFs automatically
• Utilising 'Knit with parameters' within the Posit interface
• Purrr for iteration - using map() and pwalk()

R Script including dataset loading (2023-08 folder in this repository)

Presented by Riinu Pius and Sarah Elliot, Recorded in August 2023.

Data Cleaning 2

This video covers:

• Cleaning column names
• Consistency of NAs
• Duplicate entries

R Script including dataset loading (2023-10 folder in this repository)

Presented by Riinu Pius and Sarah Elliot, Recorded in October 2023.

Reading Multiple Spreadsheets

This video covers:

• Reading in CSV and XML files into R
• Working with multiple sheets in one file
• The difference between binding rows and joining dataframes

R Script including dataset loading (2023-10 folder in this repository)

Presented by Riinu Pius and Sarah Elliot, Recorded in October 2023.

Quarto 1

This video covers:

• What is Quarto?
• Quarto Projects and Documents
• Executable Options
• COnditional Content

R Script including dataset loading (2023-11 folder in this repository)

Presented by Riinu Pius and Sarah Elliot, Recorded in November 2023.

Quarto 2

This video covers:

• Creating a website
• Publishing a website
• Quarto tips

R Script including dataset loading (2023-11 folder in this repository)

Presented by Riinu Pius and Sarah Elliot, Recorded in November 2023.