Whatmind.com

I find that making personal references is helpful and am glad to share what I have.

Mixed Model Reference
This is a simple tutorial I created summarizing some results for ordinary least squares (OLS) and generalized least squares (GLS). It gives the basic solutions as well as some example of how these tools are utilized when evaluating the relationships between genetic and phenotypic variation.

I am working on a few different projects that will result in freely available code, which will be posted here.

Mixed Model Coexpression (MMC)
The paper was was published in Bioinformatics as part of the proceedings for ISMB 2011.
Longitudinal Genome-wide Association (longGWAS)
I published a method for performing genome-wide assocation with longitudinal phenotypes. The code is available through this link.

A good library is essential. Here are a few books that I can't live without and a few that I really want to read more deeply.

Generalized Linear and Mixed Models
Difficult to follow at times. Great as a reference.
Aspects of Multivariate Statistical Theory
This book cuts to the core of many commonly accepted concepts such as the multivariate normal and the correlation coefficient. There are lots of derivations.
Mathematical and Statistical Methods for Genetic Analysis
A concise explanation of topics at the foundation of statistical genetics.
Convex Optimization (Free)
Convex optimization turns out to be a sort of unifying theory for a large set of problems.
Introduction to Quantitative Genetics
A classical text on quantitative genetics that gives a foundation for the field.

Various other snippits of info...

InfoChimps APIs
These guys have a lot of data and some cool APIs. Here is an example of using one. This script finds your location using their API and then redirects to a google map (code).
Mining the web with Perl
This isn't really much of a hacking resource, but I was pretty proud of it at the time. I submitted this article to 2600 back in 2004.