Blog Archives

What’s so great about real names?

May 14, 2015
By

A little while back a New York Times article discusses the consequences for college admission of saying undiplomatic things in social media. Apparently colleges monitor, or at least check up on, the social media presence of their potential applicants to see whether they’re the right kind of person for the school. Inevitably, students scrub, curate, or […]

Read more »

Translational Bioinformatics Year In Review

April 10, 2015
By
Translational Bioinformatics Year In Review

Per tradition, Russ Altman gave his "Translational Bioinformatics: The Year in Review" presentation at the close of the AMIA Joint Summit on Translational Bioinformatics in San Francisco on March 26th.  This year, papers came from six key areas (a...

Read more »

Getting R and Java 1.8 to work together on OSX

December 29, 2014
By

Hey Mac OSX users with Java 1.8 installed. Did R just request a Java 1.6 installation and then promptly crash your session?  If so, read on… The Problem A few days ago I was attempting to use the mallet package for topic models and I found that typing > library(mallet) caused two things to happen: […]

Read more »

An open letter to Scotland on the eve of their independence vote

September 17, 2014
By

Bye.

Read more »

Mycoplasma Contamination in Cell-Line Based Experiments

May 6, 2014
By
Mycoplasma Contamination in Cell-Line Based Experiments

For a few years now, my EvoSTAR colleague, Bill Langdon, has been exploring the degree to which Mycoplasma bacteria have contaminated experimental systems and even "infected" online databases with the contents of their genomes.  He and his colleag...

Read more »

Russ Altman’s Translational Bioinformatics Year in Review

April 22, 2014
By
Russ Altman’s Translational Bioinformatics Year in Review

A few weeks ago the 2014 AMIA Translational Bioinformatics Meeting (TBI) was held in beautiful San Francisco.  This meeting is full of great science that spans the divide between molecular and clinical research, but a true highlight of this meetin...

Read more »

There is no Such Thing as Biomedical "Big Data"

February 11, 2014
By
There is no Such Thing as Biomedical "Big Data"

At the moment, the world is obsessed with “Big Data” yet it sometimes seems that people who use this phrase don’t have a good grasp of its meaning.  Like most good buzz-words, “Big Data” sparks the idea of something grand and complicated...

Read more »

More SOTU Scaling

January 30, 2014
By
More SOTU Scaling

A couple of days ago the Monkey Cage featured Ben Lauderdale’s one-dimensional scaling model of US State of the Union addresses. In this post, I replicate the analysis with a closely related model, ask what the scaled dimension actually means, and consider what things would look like if we added another one. The technical details […]

Read more »

Using Database Joins to Compare Results Sets

November 20, 2013
By
Using Database Joins to Compare Results Sets

One of the most powerful tools you can learn to use in genomics research is a relational database system, such as MySQL.  These systems are fairly easy to setup and use, and provide users the ability to organize and manipulate data and statistical...

Read more »

A Mitochondrial Manhattan Plot

November 6, 2013
By
A Mitochondrial Manhattan Plot

Manhattan plots have become the standard way to visualize results for genetic association studies, allowing the viewer to instantly see significant results in the rough context of their genomic position.  Manhattan plots are typically shown on a l...

Read more »


Subscribe

Email:

  Subscribe