knitr is an R package for dynamic report generation based on the concept of literate programming.

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16
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457 views

How to write an arara rule for knitr

I've been trying to write a rule for invoking knitr via arara, but I don't seem to know what I'm doing, apparently. The arara manual explains how to define custom rules. To do so, it is necessary to ...
6
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425 views

Arguments of R Functions in Beamer with knitr

I'm using helpExtract.R function (can be obtained from here) to get arguments of R functions in Beamer with knitr. My (.Rnw) MWE is \documentclass{beamer} \usepackage{ragged2e} %new code \usetheme{...
5
votes
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990 views

Color first row in a xtable generated table

I am trying to color the FIRST row of my table. But if I add \rowcolor[gray]{0.95} to the FIRST row the colored row will be the SECOND. Indeed it is quite straight forward to modify from the second ...
5
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0answers
200 views

How to mantain consisten font size in different plots

I usually embed numerous R plots in my TeX documents. knitr is very handy in helping me producing plots using the same font family of the TeX document. But a different problem of consistency is given ...
4
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201 views

tikz stops drawing into pdf after 20 line segments in plot generated through knitr tikzDevice

Problem If I try to draw a curve generated through knitr using tikzDevice into .pdf only 20 line segments of that curve are drawn and TeXstudio, through which I do it, just leaves message running ...
4
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0answers
327 views

Using subcaption package with knitr

How can I use subcaption package in knitr, instead of the obsolete subfig and \subfloat? Or, maybe, specify additional options with fig.env = 'subfigure'? It needed something like this: \begin{...
3
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0answers
244 views

Knitr and numbers

I return to a question, which is few months old and then maybe not yet the best practice around. I use the siunitx package in my documents along with knitr to compile my R chunks. As far as I ...
3
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216 views

Sub-figures in multiple pages but with one figure caption and showing “continued on next page”

The below code (together with Knitr package in R) creates figures on 3 pages under one caption of "Figure 1: Lots of figure". What I want to have is something like "footer" underneath figures in ...
3
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93 views

knitr pdf search invisible text

I use the fantastic knitr to generate beamer-pdf’s with hundreds of slides of plots. Every plot shows data of different measuring equipment, so for example the plot showing result of measuring ...
2
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26 views

Why are the axis labels too large when using tikzDevice and lattice?

I'm working on a paper that is to be submitted to an Elsevier journal. The official guidelines state that: As a general rule, the lettering on the artwork should have a finished, printed size of ...
2
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0answers
54 views

What is the counterpart in LaTeX for the R package ezknitr and its tools for managing paths and directories

Dean Attali has just added an R package called ezknitr to CRAN. It enables those who use knitr and RMarkdown in .Rmd files to handle directories quite flexibly. His blog describes it well: path ...
2
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33 views

Formatting text the same way knitr formats code, but outside of chunks

Back when I was using sweave, I could make my inline code look like R code by using \texttt{whatever} or \verb@whatever@. I am trying out knitr, and the format of the code chunks sure is pretty. But ...
2
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0answers
51 views

Knitr Plot Tooltips for ADA Compliance

I would like to use Knitr to generate plots in R that have hover-over tooltips. Here is a working example without an R tooltip: \documentclass{article} \usepackage{pdfcomment} \begin{...
2
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0answers
93 views

Extra Curly Braces when creating Xtable using Knitr, after specifiying size

I'm creating a R Markdown document using knitr and am running into trouble using xtable to create a table. My table is very large and I'm trying to reduce the size using the size command in the print ...
2
votes
0answers
29 views

Page margins in .Rtex

I'm using ShareLatex to write my thesis (which relies heavily on R) but the page size changes when I set my document to "main.Rtex" instead of "main.tex". I provide a minimal example so you can check ...
2
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0answers
116 views

SOLVED - Knitr/pandoc bibliography problem

I would try to convert the way I write my scientific articles from Sweave/LaTeX to knitr/pandoc. I've been able to reproduce almost everithing with the exceptions of the references. I googled a lot ...
2
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0answers
236 views

R-code linebreaks AND themes in knitr

hpesoj626 provides two great minimal working examples for how to get R-code linebreaks AND code highlighting in knitr. I was wondering if it was possible to use Yihui's knitr themes within either of ...
2
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0answers
105 views

Blog publishing / creation from Latex

I have been using Latex for a few years, and have several articles written in Latex. I want to share some of these articles on blogs, and I am very new to the blogging world. Just wondering if there ...
2
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0answers
397 views

Best practice for ggplot transparency in pdf figures

I lost a couple of hours because of few transparent figures which Adobe Professional couldn't flatten to print (it crashed in the process). I wonder if there's any trick to produce PDF figures with ...
2
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0answers
53 views

Use of environ package with knitr

I'm working on a knitr document and trying to place knitr output inside of a new environment defined using the environ package. The example below illustrates the problem. With a traditional LaTeX ...
2
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0answers
224 views

knitr: Several figures with subcaptions, alignment issues

Here is a minimal working example: \documentclass{article} \usepackage{subfig} \begin{document} <<echo=FALSE,out.width="0.49\\linewidth",fig.show="hold",fig.align="center",fig.cap="Some ...
2
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0answers
107 views

How to export changes from a .tex file back to the source .Rnw file

Let's say my work-flow is writing a paper with multiple R chunks as a .Rnw then compiling it into a .tex file and then typesetting it into the final document. Now, after the document has been ...
2
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0answers
293 views

Knitr/LaTeX: conditional execution based on external parameters

I'm using knitr to create LaTeX documents with integrated R code. Now I'd like to readout some external parameters (saved in a TXT or CSV file) and create a document based on the conditions specified ...
1
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0answers
20 views

How to create looped output with knitr?

In my thesis, I have found 79 different concepts I need to describe in detail in the appendix. I used R for the analysis, and I want to use knitr for creating that appendix. Each description follows ...
1
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0answers
680 views

Error 43 while knitting a markdown to pdf in a R project created on mac and run on Windows

I created a R project which outputs some plots to pdf using rmarkdown::render with an .Rmd file. I shared the folder when the R project and all the relative files are kept to a colleague using Google ...
1
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0answers
137 views

ShareLatex knitr install package

Sharelatex comes with a few R library's that you can query. However, it is impossible for me to install a package or query a non pre-installed package. The package I am trying to use is the arm ...
1
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0answers
58 views

Display if the variable is NA / not-NA

I have a variable assigned as a output of a function, which returns numeric value or NA. The following code mimics it. <<>>= data <- sample(c(TRUE, FALSE), size = 1, replace = TRUE) @ ...
1
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0answers
151 views

vim + knitr + synctex + file watch + sumatrapdf (on windows)

I'm trying to get a task runner watching a directory for changes and then run the following: knit Rnw file pdflatex the resulting tex file (with bibtex) open pdf viewer and have both forward/reverse ...
1
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0answers
34 views

Using \adjustwidth seems to break with a figure caption in knitr

I need to adjust my margins so I can place two pictures side by side. This works when there is no caption on the picture but when I add a caption the margins revert back to how they were. \begin{...
1
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0answers
64 views

How can I remove extra spaces in code passed through probsoln package?

This is an easy question to a potentially complicated situation. I'm using RStudio to write homework and exams using the probsoln package that embeds R code into the LaTeX directly. I am using knitr ...
1
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0answers
111 views

Using xtable with listings package

I am the listings package as suggested by the following solution provided in this question: Getting Sweave code chunks to stay inside page margins? More specifically, I am using the following piece ...
1
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0answers
351 views

Problem using tikzDevice in knitr

I can't seem to get knitr to work with tikzdevice. A simple example: \documentclass{article} \begin{document} <<test, dev='tikz'>>= library(knitr) library(tikzDevice) library(ggplot2) ...
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0answers
77 views

How can I show a caption, subcaption and source similar to this NY Times style?

I would like to create a LaTeX document that mimics the style used on the NY Times' Upshot Blog (example at NY Times). Here is the desired output: They have these features: A thin gray line ...
1
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0answers
433 views

How to include a .TeX file generated from .Rnw file into a .TeX file which is child of parent .TeX file?

I really need help. Here is the problem: I'm writing my dissertation using a LaTeX template (http://www.latextemplates.com/template/masters-doctoral-thesis). The template is a parent file with ...
1
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0answers
273 views

Force Knitr Figure on same page

I am using Knitr on RStudio. <<glmall, include=TRUE, fig.align='center', fig.cap='Diagnostics plots for full-model with GLM (Poission)', fig.show='asis'>>= par(mfrow=c(2,2)) plot(college....
1
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0answers
92 views

Setting LaTeX => PS => PDF in RStudio

I am using RStudio, with knitr, and want to use Lodewyckx's graphicalmodels.sty for graphs. It requires changing output profile to LaTeX to PS to PDF. Can this be done in RStudio still using knitr?
1
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474 views

Control stargazer table output in combination with mathpazo and siunitx

I like the idea to control all my numeric outputs with the smallest number possible of packages. I use mathpazo to control my fonts and siunitx to control formatting. Yet when I knit a LaTeX table ...
1
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0answers
184 views

Error R Sweave and Knitr Plugins at WinEdt 8.0?

I try a simple example document .rnw at WinEdt with R Sweave Plugin like this : \documentclass{article} \begin{document} \SweaveOpts{concordance=TRUE} \textbf{hello world} <<echo=TRUE,fig=TRUE&...
1
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0answers
430 views

How do I add a caption to a table within a minipage?

I am using Knitr to generate two tables side by side on a two column layout (ACM sigproc). \begin{table*} \begin{minipage}[h]{0.49\linewidth} <<results='asis'>>= print(xtable(o.stats.sel....
1
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0answers
154 views

“Undefined control sequence” error in .rnw file

I see that this error has been posted to tex.stackexchange but the answers seem to differ based on the sytnax used to cause the error, and I cannot find a similar enough context to my own (For ...
1
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0answers
269 views

Clash between knitr, tikzDevice and pgfplotstable

I use knitr to compile a document composed of two .Rnw. Please considered the following examples from this answer main.Rnw % !Rnw weave = knitr % !TeX program = pdfLaTeX \documentclass[final,12pt]{...
0
votes
0answers
7 views

How to add reference to a knitr figure chunk in lyx?

Is there a way to make the lyx dialog "add -> cross references" to find knitr figure chunks? I.e., is there a lyx built-in way to add references to knitr figures other than use \ref manually?
0
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0answers
35 views

LaTeX Error: Environment snugshade undefined when trying to knit pdf from rmd file

I have a basic Rmd file which looks like this: --- title: "trial" output: pdf_document --- ```{r setup, include=FALSE} knitr::opts_chunk$set(echo = TRUE) ``` ```{r trial} plot(1:10) ``` When I ...
0
votes
0answers
31 views

Texmaker: display the structure of the whole document

I am working on a Latex document which includes several parts in separate documents. Is there a way to make Texmaker look into the included documents to display on the left hand sire panel all the ...
0
votes
0answers
50 views

Caption options don't work in rmarkdown beamer template

I want to resize the figure captions in an rmarkdown beamer template, so I added \usepackage[font={small,it}]{caption} to my header.tex. But it doesn't work - the options are ignored. I didn't find ...
0
votes
0answers
47 views

knitr: How to wrap text around a table generated around code chunk?

I would like to wrap text around a table generated by a knitr code chunk. I found a solution for a regular table here, but I didn't manage to re-implement it for a table generated by a code chunk. For ...
0
votes
0answers
46 views

XeLaTeX + knitr + Arial = error

When I compile the following: \documentclass{article} \usepackage{fontspec} \setmainfont{Arial} \begin{document} Hello. <<foo, dev='tikz'>>= library(ggplot2) qplot(1) @ \end{document} ...
0
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0answers
144 views

I can not install the framed package in R Markdown

Hi I am trying to install the framed package from LaTeX in RStudio because I get the Error when I am trying to use knitr. There are my LaTeX Error: File `framed.sty' not found. Type X to quit or ...
0
votes
0answers
46 views

Can we use itemize specially nested itemize without itemize environment?

I am writing in Markdown a LaTeX doc. In this special environment I apply a R Code after every \item. It means I cannot use itemize environment! And I know that there is HTML possiblity like we ...
0
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0answers
32 views

How can I have the Latex structure in knitr?

how can I have the same structure, I mean: \section, \subsection, ... in knitr or Markdown? Is there any possibility to include every section in a separate file like in latex? \section{...