Perhaps you have a file written in Markdown with embedded R of the kind that RStudio makes so nice and easy but you’d like a range of output formats to keep your collaborators happy. Say latex, pdf, html and MS Word. Here’s what you might do I shall imagine your file is called doc.Rmd Install pandoc
229 search results for "knitr"
A simple web application using Rook
by Ben Ogorek
I'm grateful to Rook for helping me, a simple statistician, learn a few fundamentals of web technology. For R web application development, there are increasingly polished methods available (most notably Shiny ), but you can build one...
NHS Winter Situation Reports: Shiny Viewer v2
Having got my NHS Winter sitrep data scraper into shape (I think!), and dabbled with a quick Shiny demo using the R/Shiny library, I thought I’d tidy it up a little over the weekend and long the way learn a few new presentation tricks. To quickly recap the data availability, the NHS publish a weekly 
RStudio and TeXworks working great together
Just now writing a reproducible report in R using RStudio on Ubuntu. So the source is a .Rnw file and I am compiling it with knitr. For the narrative part of the report it is a shame that RStudio doesn’t have autocomplete for latex styles, headings etc. But I just realised that it is possible
From d3 to pdf (hopefully knitr) with R Shiny
Although I think I like the d3, R, and Shiny team the best, I could definitely envision a big need for multi-page pdf reports created with R, knitr, and latex delivered to the browser with Shiny. Shiny helpfully provides pre-built functionality t...
When R, or any other language, is not enough
This post is tangential to R, although R has a fair share of the issues I mention here, which include research reproducibility, open source, paying for software, multiple languages, salt and pepper. There is an increasing interest in the reproducibility … Continue reading →
Is invasive?
The Global Invasive Species Database (GISD) (see their website for more info here) has data on the invasiveness status of many species. From taxize you can now query the GISD database.
Introducing the function gisd_isinvasive. This function was contributed to taxize by Ignasi Bartomeus, a postdoc at the Swedish University Agricultural Sciences.
There are two possible outputs from using...
Using (R) Markdown, Jekyll, & GitHub for a Website
Introduction
Markdown has been growing in popularity for writing documents on the web. With the introduction of R Markdown (see also Jeromy Anglim’s post on getting started with R Markdown) and knitr, R Markdown has simplified the publishing of R analysis on the web. I recently converted my website from Wordpress to Jekyll. Jekyll...
ICERM Reproducibility Workshop: Day 1
I'm attending a workshop on reproducibility at ICERM (Brown University) this week. I really appreciate this great opportunity offered by ICERM, Randy and Victoria. It is pretty exciting to meet people that you only knew before through indirect ways. O...
Shiny apps are awesome
RStudio has a new product called Shiny that, quoting from their website, "makes it super simple for R users like you to turn analyses into interactive web applications that anyone can use". See here for more information.
A Shiny basically consists of two files: a ui.r file and a server.r file. The ui.r file, as it says, provides...
Zero Inflated Models and Generalized Linear Mixed Models with R.
Zuur, Saveliev, Ieno (2012).
