Solution: use your ~/.my/cnfInside your ~/.my.cnf file define the connection parameters to your databases. For example, here I define two groups called local and toto:[local]user = rootpassword = ultra_secrethost = localhost[toto]user = capitaine_flamp... [Read more...]

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As air pollution in Beijing reach new high [NYT article]. I re-ran the analysis I put online a few months ago. "Crazy bad" is a good description when it reach those levels. But I am sure there are other place like Mexico city, LA etc... that also look as dramatic ... [Read more...]

The positive false discovery rate (pFDR) has become a classical procedure to test for false positive. It is one of my favourite because it rely on a re-sampling approach.I base my implementation on John Storey PNAS paper and the technical report he published with Rob Tibshirani while at Stanford [1... [Read more...]

The Guardian DataBlog published yesterday an interesting article exploring graphically the religious intolerance across the world. The data are coming from a report published by Pew Research Center's Forum on Religion and Public Life. I like the philosophy DataBlog a lot, providing the raw data for everyone to look at. ... [Read more...]

One of the air pollution detection machine in Beijing (at the American Embassy) is connected to Twitter and tweet about the air quality in real time. By default the machine in Beijing output the 24hr summary PM2.5 air pollution information. What is PM2.5 is define here Next will be to ... [Read more...]

While speeding up some code the other day working on a project with a colleague I ended up trying Rcpp for the first time. I re-implemented the cosine distance function using RcppArmadillo relatively easily using bits and pieces of code I found scattered around the web. But the speed increase ... [Read more...]

Building a network of interaction between a bunch of genes can help a great deal in understanding the relationships between the seemingly disparate elements from your list. It can seems challenging at first to build such network but it's less complicat... [Read more...]

Interpreting a list of differentially regulated genes can take many forms. One of the most widely used method is looking for enrichment of functional group of genes compared to a random sampling of gene from the same universe, namely an over-representation analysis (ORA).The point I want to explore today ... [Read more...]

The traditional way to show that your topic is worth studying in front of an audience is to show the state of the field based on a literature review. This is especially true if your subject is obscure except to a handful of scientists in the world.I was confronted ... [Read more...]