Last updated: 2020-11-01

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.


Great! Since the R Markdown file has been committed to the Git repository, you know the exact version of the code that produced these results.

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.

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.

Great job! Recording the operating system, R version, and package versions is critical for reproducibility.

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

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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 3ec3460. 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

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/ch23_rmd_formats.Rmd) and HTML (docs/ch23_rmd_formats.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 bf15f3b sciencificity 2020-11-01 Build site.
html 0aef1b0 sciencificity 2020-10-31 Build site.
html bdc0881 sciencificity 2020-10-26 Build site.
Rmd b7ebd72 sciencificity 2020-10-26 added Ch23

Set output format

There are two ways to set the output of a document:

  1. Modify the YAML header:

    title: "Viridis Demo"
    output: html_document
  2. Call rmarkdown::render() (useful if you want to produce multiple types of output):

    rmarkdown::render("diamond-sizes.Rmd", output_format = "word_document")

To get help: ?rmarkdown::html_document

Useful options

  1. Sending to decision makers? Use echo = FALSE in opts_chunk.

    knitr::opts_chunk$set(echo = FALSE)
  2. Want to include code but hide it? Use code_folding in YAML Header.

    output:
      html_document:
        code_folding: hide

Dashboard

You can create a flexdashboard using the code:

---
title: "Diamonds distribution dashboard"
output: flexdashboard::flex_dashboard
---

```{r setup, include = FALSE}
library(ggplot2)
library(dplyr)
knitr::opts_chunk$set(fig.width = 5, fig.asp = 1/3)
```

## Column 1

### Carat

```{r}
ggplot(diamonds, aes(carat)) + geom_histogram(binwidth = 0.1)
```

### Cut

```{r}
ggplot(diamonds, aes(cut)) + geom_bar()
```

### Colour

```{r}
ggplot(diamonds, aes(color)) + geom_bar()
```

## Column 2

### The largest diamonds

```{r}
diamonds %>% 
  arrange(desc(carat)) %>% 
  head(100) %>% 
  select(carat, cut, color, price) %>% 
  DT::datatable()
```

The rendered dashboard is here.

Interactivity

library(leaflet)
leaflet() %>%
  setView(174.764, -36.877, zoom = 16) %>% 
  addTiles() %>%
  addMarkers(174.764, -36.877, popup = "Maungawhau") 

sessionInfo()
R version 3.6.3 (2020-02-29)
Platform: x86_64-w64-mingw32/x64 (64-bit)
Running under: Windows 10 x64 (build 18363)

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] leaflet_2.0.3   workflowr_1.6.2

loaded via a namespace (and not attached):
 [1] Rcpp_1.0.4.6      knitr_1.28        whisker_0.4       magrittr_1.5     
 [5] hms_0.5.3         R6_2.4.1          rlang_0.4.7       stringr_1.4.0    
 [9] tools_3.6.3       xfun_0.13         git2r_0.26.1      crosstalk_1.1.0.1
[13] ellipsis_0.3.1    htmltools_0.5.0   yaml_2.2.1        digest_0.6.25    
[17] rprojroot_1.3-2   lifecycle_0.2.0   tibble_3.0.3      crayon_1.3.4     
[21] readr_1.3.1       later_1.0.0       htmlwidgets_1.5.1 vctrs_0.3.2      
[25] promises_1.1.0    fs_1.4.1          glue_1.4.1        evaluate_0.14    
[29] rmarkdown_2.4     stringi_1.4.6     pillar_1.4.6      compiler_3.6.3   
[33] backports_1.1.6   jsonlite_1.7.0    httpuv_1.5.2      pkgconfig_2.0.3