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A repository of R usage tips for data cleaning, data mining, data visualisation, statistical inference and machine learning

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R programming tips

🎨 Data visualisation

📚 Data cleaning

🔨 Productionisation

🔢 Statistical modelling

🔮 Machine learning

Other resources

The resources below also cover a comprehensive range of practical R tutorials.

Tutorial style guide

This repository now contains the following file naming and code style rules.

  • Folders are no longer ordered with a numerical prefix and names are no longer case sensitive e.g r_tips\tutorials\... and r_tips\figures\...
  • Tutorial subtopics share the same prefix e.g. r_tips\tutorials\dv-... and r_tips\tutorials\st-...
  • File names contain - to separate file name prefixes and _ instead of other white space e.g. r_tips\figures\dv-using_diagrammer-simple_flowchart.svg
  • Comments are styled according to the tidyverse style guide:
    • The first comment explains the purpose of the code chunk and is styled differently for enhanced readability e.g. # Code as header --------
    • Comments are written in sentence case and only end with a full stop if they contain at least two sentences
    • Short comments explaining a function argument do not have to be written on a new line
    • Comments should not be followed by a blank line, unless the comment is a stand-alone paragraph containing in-depth rationale or an alternative solution
  • R code chunks are styled as follows:
    • Each R chunk should be named with a short unique description written in the active voice e.g. create basic plot and modify plot labels
    • Arguments inside code chunks should not contain white space and boolean argument options should be written in capitals e.g. {r load libraries, message=FALSE, warning=FALSE}
    • To render the github document, results are generally suppressed using results='hide' and manually entered in a new line beneath the code.
    • To render the github document, figures are generally outputed using fig.show='markdown' and figure outputs can then be suppressed at the local chunk level using fig.show='hide'
  • Set a margin of 80 characters length in RStudio through Tools\Global options --> Code --> Display --> Show margin and use this margin as the cut-off for code and comments length

Citations

Citing packages is a good practice when you are publishing research papers. To do this, use citations("package") to print the relevant package publication. A non-exhaustive list of R packages used in this repository is found below.

  • R Core Team (2021). R: A language and environment for statistical computing. R Foundation for Statistical Computing, Vienna, Austria. URL https://www.R-project.org/.
  • Wickham et al., (2019). Welcome to the tidyverse. Journal of Open Source Software, 4(43), 1686, https://doi.org/10.21105/joss.01686
  • H. Wickham. ggplot2: Elegant Graphics for Data Analysis. Springer-Verlag New York, 2016.
  • Matt Dowle and Arun Srinivasan (2021). data.table: Extension of data.frame. R package version 1.14.2. https://CRAN.R-project.org/package=data.table

Acknowledgements

Many kudos to Dr Chuanxin Liu, my former PhD student and code editor, for teaching me how to code in R in my past life as an immunologist.

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A repository of R usage tips for data cleaning, data mining, data visualisation, statistical inference and machine learning

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