如何使用spin（）编织器生成报告并以pdf格式保存一些图

Question

I'm a little lost with the knitr package. I love the spin() function to quickly give me a global view of my analyses, but I need to save some very important plots in separate pdf (by example the 8th plot of my file should be save as "Figure1.pdf" AND displayed in the report).

When I write :

Some random code and plots...

pdf('Figure1.pdf')
plot(important plot)
dev.off()

Some random code and plots

The important plot is not displayed in the report after a spin(), and I would like to be in the report AND the pdf.

Is there any way ?

Thanks

Answer 1

spin() do save all plots, although it saves plots in the PNG format by default, because of the argument spin(..., format = 'Rmd') (R Markdown uses the PNG device).

You can specify chunk options in the R script as well: just use #+ or #- , eg

#' Some random code and plots...

#+ Figure1, fig.path='', dev=c('png', 'pdf')
plot(important plot)

#' Some random code and plots

Note the dev option takes a vector of devices, as @baptiste mentioned.

Or you use the Rnw format, eg (you do not need to specify dev )

spin(..., format = 'Rnw')

The output will be LaTeX/PDF instead of HTML in this case.

Answer 2

If I understand the question, repeating the plot statement after closing the device has worked without producing a duplicate in the report:

Some random code and plots...

pdf('Figure1.pdf')
plot(important plot)
dev.off()
plot(important plot)

Some random code and plots