monkey's uncle

notes on human ecology, population, and infectious disease

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AAA Recap, 2013

November 26th, 2013 · No Comments

I guess it’s that time of the year. You know, when I recap, in my bittersweet way, the annual meeting of the American Anthropological Association? I am an anthropologist, yes, but I am deeply torn in my feelings for my discipline, my department, and my flagship (?) professional organization. The question mark arises because I […]

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Tags: Anthropology · science · Social Network Analysis

Why the Prediction Market Failed to Predict the Supreme Court

July 8th, 2012 · No Comments

There is a very interesting piece in the New York Times today by David Leonhardt on the apparent backlash against prediction markets such as Intrade and Betfair. In principle, these markets make predictions by aggregating the disparate information of many independent bettors who offer prices for a particular outcome. Prediction markets have enjoyed a fair […]

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Tags: Social Network Analysis

New Grant, Post-Doc Opportunity

August 18th, 2011 · 3 Comments

Biological and Human Dimensions of Primate Retroviral Transmission One of the great enduring mysteries in disease ecology is the timing of the AIDS pandemic. AIDS emerged as a clinical entity in the late 1970s, but HIV-1, the retrovirus that causes pandemic AIDS, entered the human population from wild primates many decades earlier, probably near the […]

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Tags: Human Ecology · Infectious Disease · Primates · Social Network Analysis

My Erdős Number

March 1st, 2011 · No Comments

Paul Erdős was the great peripatetic, and highly prolific, mathematician of the 20th century. A terrific web page run by Jerry Grossman at Oakland University provides details of the Erdős Project. Erdős was a pioneer in graph theory, which provides the formal tools for the analysis of social networks.  A collaboration graph is a special graph in which the […]

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Tags: Social Network Analysis

Nearly Neutral Networks and Holey Adaptive Landscapes

December 29th, 2008 · 2 Comments

My holiday reading on modularity has led me into some of the literature on the evolution of complexity.  Some of the most interesting work in theoretical biology that I’ve read in a while relates to the ideas of nearly neutral networks and holey adaptive landscapes, an area developed by Sergey Gavrilets at the University of […]

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Tags: Evolution · R · Social Network Analysis

Plotting Networks in R

December 11th, 2008 · 1 Comment

Using the network package, you can plot graphs in a flexible and powerful way.  Often, when plotting a network, we want to vary the color, size, or shape of the vertices based on some attributes.  Let's say that we have a freewheeling sexual network (easier to simulate) and we would like to color the vertices […]

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Tags: R · Social Network Analysis

Extracting adjacency matrices with valued edges

September 12th, 2008 · No Comments

This may seem obvious to an expert statnet user, but it took me a bit of careful reading of Carter's paper and some trial and error to figure it out. We are using the frequency of behaviors based on ethological observations as edge weights and would like to be able to extract a matrix of […]

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Tags: R · Social Network Analysis

Extracting an edge list from a network object

September 11th, 2008 · 4 Comments

I've been using the statnet suite of tools a lot recently.  As with any powerful software, there is quite a learning curve.  I will write some notes in my blog to help me remember tricks that I learn along the way.  And who knows? They might even be useful to other people! For a variety […]

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Tags: R · Social Network Analysis