Last updated: 2020-11-21

Checks: 7 0

Knit directory: r4ds_book/

This reproducible R Markdown analysis was created with workflowr (version 1.6.2). The Checks tab describes the reproducibility checks that were applied when the results were created. The Past versions tab lists the development history.

R Markdown file: up-to-date

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Environment: empty

Great job! The global environment was empty. Objects defined in the global environment can affect the analysis in your R Markdown file in unknown ways. For reproduciblity it’s best to always run the code in an empty environment.

Seed: set.seed(20200814)

The command set.seed(20200814) was run prior to running the code in the R Markdown file. Setting a seed ensures that any results that rely on randomness, e.g. subsampling or permutations, are reproducible.

Session information: recorded

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Cache: none

Nice! There were no cached chunks for this analysis, so you can be confident that you successfully produced the results during this run.

File paths: relative

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Repository version: 6e7b3db

Great! You are using Git for version control. Tracking code development and connecting the code version to the results is critical for reproducibility.

The results in this page were generated with repository version 6e7b3db. See the Past versions tab to see a history of the changes made to the R Markdown and HTML files.

Note that you need to be careful to ensure that all relevant files for the analysis have been committed to Git prior to generating the results (you can use wflow_publish or wflow_git_commit). workflowr only checks the R Markdown file, but you know if there are other scripts or data files that it depends on. Below is the status of the Git repository when the results were generated: 


Ignored files:
    Ignored:    .Rproj.user/

Untracked files:
    Untracked:  analysis/images/
    Untracked:  code_snipp.txt
    Untracked:  data/at_health_facilities.csv
    Untracked:  data/infant_hiv.csv
    Untracked:  data/measurements.csv
    Untracked:  data/person.csv
    Untracked:  data/ranking.csv
    Untracked:  data/visited.csv

Note that any generated files, e.g. HTML, png, CSS, etc., are not included in this status report because it is ok for generated content to have uncommitted changes.

These are the previous versions of the repository in which changes were made to the R Markdown (analysis/ch4_scripts_ide.Rmd) and HTML (docs/ch4_scripts_ide.html) files. If you’ve configured a remote Git repository (see ?wflow_git_remote), click on the hyperlinks in the table below to view the files as they were in that past version.

File Version Author Date Message
html 7ed0458 sciencificity 2020-11-10 Build site.
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html 4879249 sciencificity 2020-11-09 Build site.
html e423967 sciencificity 2020-11-08 Build site.
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html 4497db4 sciencificity 2020-10-18 Build site.
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html ce8c214 sciencificity 2020-10-16 Build site.
html 1fa6c06 sciencificity 2020-10-16 Build site.
html 9ae5861 sciencificity 2020-10-13 Build site.
Rmd d9de836 sciencificity 2020-10-13 added more content Ch 3
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Rmd ae71e8e sciencificity 2020-10-10 added Ch 4 section

wasted time

My tips and tricks

Here are a few of my tips and tricks for improving my programming efficiency in R and RStudio which I use as an IDE.
<Disclaimer: I use a Windows PC>

I also tend to do two things:

  1. I always work in a Project (File -> New Project ...)
  2. I usually use RMarkdown files for my coding (File -> New File -> R Markdown ...).

Some of the shortcuts below may seem foreign, I suggest checking out the ones that seem useful to you, and coming back once you’re further along in the book 💪.

Pipe shortcut

Use Ctrl + Shift + M to insert the pipe operator.

enter shortcut for pipe

Comment Code

Use Ctrl + Shift + C to comment out selected code.

shorcut for comment

Create a multi line comment

Use Ctrl + Shift + / to reflow a long comment.

shorcut for reflowing a long comment

Create a code chunk in Rmd

Use Ctrl + Alt + i to create a new code chunk in an RMarkdown document.

shorcut for inserting a code chunk

Insert an outline in your file

Add four dashes ---- to create a new outline element for easy navigation.

create a new outline element

Pull out Tabs

Pull out tabs in RStudio

Find/Search

  • Ctrl + . -> Opens a popup where you can search for functions in your script or Files in your folder
  • Ctrl + Shift + F -> opens a “Find in Files” popup

Find/Search in RStudio

Code snippets

In Tools -> Global Options -> Code you will find a list of code snippets.

Code snippets

History Commands

Ctrl + Up Arrow in the console shows you a list of your previous commands.

Historical commands

Miscellaneous

Extract Function allows you to turn code into a function.

Extract Function

Rename in scope

Ctrl + Shift + Alt + M allows you to rename a variable in scope.

Rename variable

Find your own fave shortcut

To open the Shortcuts menu hold down Alt + Shift + K

create a new outline element

Diagnostics

The RStudio IDE has updates as time passes. Check out here for the one I looked at.

You can do a search in Google for RStudio diagnostics.


sessionInfo()
R version 3.6.3 (2020-02-29)
Platform: x86_64-w64-mingw32/x64 (64-bit)
Running under: Windows 10 x64 (build 19042)

Matrix products: default

locale:
[1] LC_COLLATE=English_South Africa.1252  LC_CTYPE=English_South Africa.1252   
[3] LC_MONETARY=English_South Africa.1252 LC_NUMERIC=C                         
[5] LC_TIME=English_South Africa.1252    

attached base packages:
[1] stats     graphics  grDevices utils     datasets  methods   base     

other attached packages:
[1] emo_0.0.0.9000  workflowr_1.6.2

loaded via a namespace (and not attached):
 [1] Rcpp_1.0.4.6     rstudioapi_0.11  whisker_0.4      knitr_1.28      
 [5] magrittr_1.5     R6_2.4.1         rlang_0.4.8      stringr_1.4.0   
 [9] tools_3.6.3      xfun_0.13        git2r_0.26.1     htmltools_0.5.0 
[13] ellipsis_0.3.1   assertthat_0.2.1 rprojroot_1.3-2  yaml_2.2.1      
[17] digest_0.6.27    tibble_3.0.3     lifecycle_0.2.0  crayon_1.3.4    
[21] purrr_0.3.4      later_1.0.0      vctrs_0.3.2      promises_1.1.0  
[25] fs_1.5.0         glue_1.4.2       evaluate_0.14    rmarkdown_2.4   
[29] stringi_1.5.3    compiler_3.6.3   pillar_1.4.6     generics_0.0.2  
[33] backports_1.1.6  lubridate_1.7.9  httpuv_1.5.2     pkgconfig_2.0.3