1/1/2011 Update: Tal Galili wrote an article that revisits the first year of R-Bloggers and this post was listed as one of the top 14. Therefore, I decided to make a small update to each section. I start by describing the initial series of tutorials th...
830 search results for "tutorial"
Google spreadsheets + google forms + R = Easily collecting and importing data for analysis
Someone on the R mailing list (link) asked: how can you easily (daily) collect data from many people into a spreadsheet and then analyse it using R. The answer people gave to it where on various ways of using excel. But excel files (at least for now), are not “on the cloud”. A better answer might be to create a...
Using Regular Expressions in R: Case Study in Cleaning a BibTeX Database
I recently had to clean up a BibTeX database containing around 1,000 references. One of the clean up tasks was to ensure that page numbers were separated with en-dashes as opposed to hyphens. This post sets out how I used regular expressions in R to co...
ggplot and concepts — what’s right, and what’s wrong
A few months back I gave a presentation to the NYC R Meetup. (R is a statistical programming language. If this means nothing to you, feel free to stop reading now.) The presentation was on ggplot2, a popular package for generating graphs of data and statistics. In the talk (which you can see here, including
Quality trimming in R using ShortRead and Biostrings
I wrote an R function to do soft-trimming, right clipping FastQ reads based on quality.
This function has the option of leaving out sequences trimmed to extinction and will do left-side fixed trimming as well.
#softTrim
#trim first position lower than minQuality and all subsequent positions
#omit sequences that after trimming are shorter than minLength
#left trim to firstBase, (1 implies no left trim)
#input:...
Quality trimming in R using ShortRead and Biostrings
I wrote an R function to do soft-trimming, right clipping FastQ reads based on quality.
This function has the option of leaving out sequences trimmed to extinction and will do left-side fixed trimming as well.
#softTrim
#trim first position lower than minQuality and all subsequent positions
#omit sequences that after trimming are shorter than minLength
#left trim to firstBase, (1 implies no left trim)
#input:...
Arrange multiple ggplot2 plots in the same image window
In a previous tutorial I showed you how to create plots faceted by the level of a third variable using ggplot2. A commenter asked about using faceted plots and viewports and reminded me of this function I found in the ggplot2 Google group. The arrange function below is similar to using par(mfrow=c(r,c)) in base graphics to put more than...
Happy Birthday GGD! The 10 Most Popular Posts Since GGD’s Launch
The first post on Getting Genetics Done was one year ago today. To celebrate, here are the top 10 most viewed posts since GGD launched last year. Incidentally, nine of the ten are tutorials on how to do something in R. Thanks to all the readers and all...
Getting Started with Sweave: R, LaTeX, Eclipse, StatET, & TeXlipse
Being able to press a single button that runs all your statistical analyses and integrates the output into your final report is a beautiful thing. If you have not already heard, this is what Sweave can do for you. However, getting your computer to run ...
Getting Started with Sweave: R, LaTeX, Eclipse, StatET, & TeXlipse
Being able to press a single button that runs all your statistical analyses and integrates the output into your final report is a beautiful thing. If you have not already heard, this is what Sweave can do for you. However, getting your computer to run ...
Zero Inflated Models and Generalized Linear Mixed Models with R.
Zuur, Saveliev, Ieno (2012).
