#LyX 2.1 created this file. For more info see http://www.lyx.org/ \lyxformat 474 \begin_document \begin_header \textclass beamer \begin_preamble \usetheme{PaloAlto} \end_preamble \use_default_options true \begin_modules knitr \end_modules \maintain_unincluded_children false \language english \language_package none \inputencoding default \fontencoding global \font_roman default \font_sans default \font_typewriter default \font_math auto \font_default_family default \use_non_tex_fonts false \font_sc false \font_osf false \font_sf_scale 100 \font_tt_scale 100 \graphics default \default_output_format default \output_sync 0 \bibtex_command default \index_command default \paperfontsize 10 \spacing single \use_hyperref true \pdf_bookmarks true \pdf_bookmarksnumbered false \pdf_bookmarksopen false \pdf_bookmarksopenlevel 1 \pdf_breaklinks false \pdf_pdfborder true \pdf_colorlinks false \pdf_backref false \pdf_pdfusetitle true \papersize default \use_geometry true \use_package amsmath 1 \use_package amssymb 1 \use_package cancel 1 \use_package esint 1 \use_package mathdots 1 \use_package mathtools 1 \use_package mhchem 1 \use_package stackrel 1 \use_package stmaryrd 1 \use_package undertilde 1 \cite_engine basic \cite_engine_type default \biblio_style plain \use_bibtopic false \use_indices false \paperorientation portrait \suppress_date false \justification true \use_refstyle 1 \index Index \shortcut idx \color #008000 \end_index \secnumdepth 3 \tocdepth 3 \paragraph_separation indent \paragraph_indentation default \quotes_language english \papercolumns 1 \papersides 1 \paperpagestyle default \tracking_changes false \output_changes false \html_math_output 0 \html_css_as_file 0 \html_be_strict false \end_header \begin_body \begin_layout Standard \begin_inset ERT status open \begin_layout Plain Layout <>= \end_layout \begin_layout Plain Layout library(knitr) \end_layout \begin_layout Plain Layout opts_chunk$set(fig.path='figure/beamer-',fig.align='center',fig.show='hold',size='f ootnotesize') \end_layout \begin_layout Plain Layout @ \end_layout \end_inset \end_layout \begin_layout Title \begin_inset Argument 1 status collapsed \begin_layout Plain Layout knitr, Beamer, and FragileFrame \end_layout \end_inset A Minimal Demo of knitr with Beamer and Fragile Frames \end_layout \begin_layout Author Yihui Xie \begin_inset Foot status open \begin_layout Plain Layout I thank Richard E. Goldberg for providing this demo. \end_layout \end_inset \end_layout \begin_layout Frame \begin_inset Argument 4 status open \begin_layout Plain Layout Background \end_layout \end_inset \end_layout \begin_deeper \begin_layout Itemize The \series bold knitr \emph on \series default \emph default package allows you to embed R code and figures in LaTeX documents \end_layout \begin_deeper \begin_layout Itemize It has functionality similar to Sweave but looks nicer and gives you more control \end_layout \end_deeper \begin_layout Itemize If you already have Sweave working in LyX, getting \series bold knitr \series default to work is trivial \end_layout \begin_deeper \begin_layout Enumerate Install the \series bold knitr \series default package in \emph on R \end_layout \begin_layout Enumerate Read \begin_inset Flex URL status collapsed \begin_layout Plain Layout https://yihui.org/knitr/demo/lyx/ \end_layout \end_inset \end_layout \end_deeper \begin_layout Itemize If you use Sweave or \series bold knitr \series default with Beamer in LyX, you must use the \emph on FragileFrame \emph default environment for the frames that contain R code chunks. Let's see if \series bold knitr \series default works with Beamer in this small demo. \end_layout \end_deeper \begin_layout Section First Test \end_layout \begin_layout FragileFrame \begin_inset Argument 4 status open \begin_layout Plain Layout First Test \end_layout \end_inset \end_layout \begin_deeper \begin_layout Standard OK, let's get started with just some text: \end_layout \begin_layout Standard \begin_inset ERT status open \begin_layout Plain Layout <>= \end_layout \begin_layout Plain Layout # some setup \end_layout \begin_layout Plain Layout options(width=60) # make the printing fit on the page \end_layout \begin_layout Plain Layout set.seed(1121) # make the results repeatable \end_layout \begin_layout Plain Layout @ \end_layout \begin_layout Plain Layout \end_layout \begin_layout Plain Layout <<>>= \end_layout \begin_layout Plain Layout # create some random numbers \end_layout \begin_layout Plain Layout (x=rnorm(20)) \end_layout \begin_layout Plain Layout mean(x);var(x) \end_layout \begin_layout Plain Layout @ \end_layout \end_inset \end_layout \begin_layout Standard BTW, the first element of \family typewriter x \family default is \begin_inset ERT status open \begin_layout Plain Layout \backslash Sexpr{x[1]} \end_layout \end_inset . (Did you notice the use of \family typewriter \backslash Sexpr{} \family default ?) \end_layout \end_deeper \begin_layout Section Second Test \end_layout \begin_layout FragileFrame \begin_inset Argument 4 status open \begin_layout Plain Layout Second Test \end_layout \end_inset \end_layout \begin_deeper \begin_layout Standard Text is nice but let's see what happens if we make a couple of plots in our chunk: \end_layout \begin_layout Standard \begin_inset ERT status open \begin_layout Plain Layout <>= \end_layout \begin_layout Plain Layout par(las=1,mar=c(4,4,.1,.1)) # tick labels direction \end_layout \begin_layout Plain Layout boxplot(x) \end_layout \begin_layout Plain Layout hist(x,main='',col="blue",probability=TRUE) \end_layout \begin_layout Plain Layout lines(density(x),col="red") \end_layout \begin_layout Plain Layout @ \end_layout \end_inset \end_layout \end_deeper \begin_layout Section The Big Question \end_layout \begin_layout Frame \begin_inset Argument 4 status open \begin_layout Plain Layout The Big Question \end_layout \end_inset \end_layout \begin_deeper \begin_layout Standard Do the above chunks work? You should be able to compile the LyX document and get a nice-looking PDF slide presentation. If not, time to double-check everything... \end_layout \end_deeper \end_body \end_document