I wonder whether I can use knitr
markdown to just create a report on the fly with objects stemming from my current workspace. Reproducibility is not the issue here. I also read this very fine thread here.
But still I get an error message complaining that the particular object could not be found.
1) Suppose I open a fresh markdown document and save it.
2) write a chunk that refers to some lm
object in my workspace. call summary(mylmobject)
3) knitr it.
Unfortunately the report is generated but the regression output cannot be shown because the object could not be found. Note, it works in general if i just save the object to .Rdata and then load it directly from the markdown file.
Is there a way to use objects in R markdown that are in the current workspace? This would be really nice to show non R people some output while still working.
If you are using RStudio, then the “Knit” button (Ctrl+Shift+K) will render the document and display a preview of it. Note that both methods use the same mechanism; RStudio's “Knit” button calls rmarkdown::render() under the hood.
To open a new file, click File > New File > R Markdown in the RStudio menu bar. A window will pop up that helps you build the YAML frontmatter for the . Rmd file. Use the radio buttons to select the specific type of output that you wish to build.
The usual way to compile an R Markdown document is to click the Knit button as shown in Figure 2.1, and the corresponding keyboard shortcut is Ctrl + Shift + K ( Cmd + Shift + K on macOS). Under the hood, RStudio calls the function rmarkdown::render() to render the document in a new R session.
You can click in the upper left menu File > Import Dataset > From Excel and select the file to import it. Then you can copy the code that appears in the R console with the code required for import the data in xlsx and then copy it in a R Markdown code chunk.
RStudio opens a new R session to knit()
your R Markdown file, so the objects in your current working space will not be available to that session (they are two separate sessions). Two solutions:
library(knitr); knit('your_file.Rmd')
(or knit2html()
if you want HTML output in one step, or rmarkdown::render()
if you are using R Markdown v2)If you love us? You can donate to us via Paypal or buy me a coffee so we can maintain and grow! Thank you!
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