Monthly Archives: June 2012
How many ecologists were on ECOLOG in 1992?
Making Reproducible Research Enjoyable
Note: this is a contributed article for the ICSA Bulletin and the basic idea can be summarized in this picture. It is hard to convince people to think about reproducible research (RR). There are two parts of difficulties: (1) tools used to be for ex...
Grid2Polygons
I’d like to introduce you to the Grid2Polygons function; an R function for converting sp spatial objects from class SpatialGridDataFrame to SpatialPolygonsDataFrame. The significance of this conversion is that spatial polygons can be transformed to a different projection or datum with the spTransform function in package rgdal. Postscript files created with spatial polygons are reduced in size and...
Hodgkin-Huxley model in R
One of the great research papers of the 20th century celebrates its 60th anniversary in a few weeks time: A quantitative description of membrane current and its application to conduction and excitation in nerve by Alan Hodgkin and Andrew Huxley. Only a...
Split-plot 1: How does a linear mixed model look like?
I like statistics and I struggle with statistics. Often times I get frustrated when I don’t understand and I really struggled to make sense of Krushke’s Bayesian analysis of a split-plot, particularly because ‘it didn’t look like’ a split-plot to … Continue reading →
useR 2012: main conference braindump
I knew R was versatile, but DANG, people do a lot with it: > > … I don’t think anyone actually believes that R is designed to make *everyone* happy. For me, R does about 99% of the things I … Continue reading →
reading shape files in R
If I would like to adjust a shape file I normally used the way over an excel file or a text file to get a table and to join this with an existing shape file. Due to the sp and rgdal packages in R you can manipulate shapefiles directly in R: now lets map the
Optimal sorting using rpart
Some time ago I read a nice post Solving easy problems the hard way where linear regression is used to solve an interesting puzzle. Following the idea I used rpart to find optimal decision tree sorting five elements.It is well known that...
Querying DBpedia from R
DBpedia is an extract of structured information from wikipedia. The structured data can be retrieved using an SQL-like query language for RDF called SPARQL. There is already an R package for this kind of queries named SPARQL.
There is an S4 class Dbpedia part of my datamart package that aims to support the creation of predefined parameterized queries. Here is...
Blog with R Markdown and tumblr: Part I
I finally got a chance this weekend to settle on a way to include R Markdown into my blogging process. I needed to do this as my subsequent postings will involve more code chunks regarding Rook deployment and examples, and R Markdown formats and highlights code chunks like a boss! If you want to incorporate R code,...
Zero Inflated Models and Generalized Linear Mixed Models with R.
Zuur, Saveliev, Ieno (2012).
