I've been using GenABEL for some time now for GWAS analysis using related individuals. It has an excellent set of functions for estimating a kinship matrix from a dense marker panel and then using this in a linear mixed effects model to allow for relat... [Read more...]

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I just got this email (yes, in French) looking for a Bayesian ready to work on algorithms: Dans le cadre de la société Vekia, nous recherchons un Docteur en statistiques bayésiennes pour un poste sur Lille à pourvoir dès que possible. Vekia est  un éditeur de logiciel pour ... [Read more...]

Over the last couple of days I have utilised some excellent free GIS resources. I have listed these and some others below. Geospatial Analysis: This is the free online version of de Smith, Longley and Goodchild’s excellent book by the same title. It provides full coverage of current GIS ... [Read more...]

***This tutorial has been updated, please click here*** I frequently use R (a free software environment for statistical computing and graphics) for data analysis.  As almost all my data are spatial it is often good to produce a map of the results without having to export the data into another ... [Read more...]

LaTeX is a typesetting language that is known for its beautiful mathematical formulas. It is similar to HTML in that you write your document in plain text and process (or compile) it to create a postscript or PDF file. You will need to download a LaTeX processor for your platform. ... [Read more...]

R is a great tool with lots of resources for genetics, genome-wide association studies, and many other biological applications.  We've covered several places to find help in R in the past, but if you're still apprehensive about diving into R's command-line interface, fear not.  The R commander is a graphical ... [Read more...]

I wish I would have discovered this long ago.  Loading data into R or MySQL requires you to specify the full path to the file.  If you do this on a Windows machine there are two annoyances.  First, if you save something to your desktop the path to your desktop ... [Read more...]

I have just reviewed the book Applied Spatial Data Analysis with R which has been published in the September2009  issue of the Royal Statistical Society’s Significance magazine. Applied Spatial Data Analysis with R is an accessible text that demonstrates and explains the handling of spatial data using the R ... [Read more...]

I've linked to UCLA's stat computing resources once before on a previous post about choosing the right analysis for the questions your asking and the data types you have. Here's another section of the same website that has code to run an identical analysis in all of these statistical packages, ... [Read more...]

Rattle is a graphical interface to R. It supports basic data management tasks, as well as a number of different modeling functions. I haven’t had a chance to test it out yet since I don’t have my R installation  completely up to date, but it looks promising. For ... [Read more...]

I recently lost my documentation folder (oops), so I had to go online and retrieve the documentation files and tutorials that I find indispensible for working. I decided I’d save myself and everyone else the trouble by posting the list here. All of the files are available in PDF ... [Read more...]

Smultron is an open-source text-editor for OS X. It’s a very lean editor, but it’s fast and it was written in Cocoa. Out of the box it has syntax highlighting for Stata and LaTeX, but not R. Basic instructions for adding a rudimentary R syntax coloring file are ... [Read more...]

Via this page, I just learned that there is a TextWrangler Language Module for R. The file itself is available here. To install, copy the .plist file to the following directory Username/Library/Application Support/TextWrangler/Language Modules I also recommend going into TextWrangler’s preferences and changing the color ... [Read more...]