My dear friend from graduate school once confided to me that he could maintain only three major passions in his…

# Blog

# (S)HIV analysis: primary infection in macaques with stem cell transplants

A few weeks ago, our JVI paper with experimentalists Dr Chris Peterson and Dr Hans-Peter Kiem was published online. The…

# Intra-host HIV model with latency

The canonical model I end up doing calculations related to this model quite a bit, so I’m leaving it here…

# Rotavirus

We were tasked for the SISMID summer courses with doing a little analysis of a virus. Our group ended up with…

# Beyond white: simulating colored noise in stochastic differential equtions

In physics, and elsewhere, stochastic processes are often simulated as white-noise processes. These processes are idealized and typically justified as…

# Adding beans to a pot

I’ve been reading through Crispin Gardiner’s `Handbook on stochastic processes’. It’s a really dense but helpful book, designed sort of…

# Why can we assume equal a priori probabilities?

Given a state with many particles, if we want to guess about how we think the particles will be distributed,…

# How to think optimally ignorantly

I often return to Jaynes’s wonderful 1957 paper “Information theory and statistical mechanics”. Starting from the entropy as defined by…

# LaTeX blogging

I am looking for a new venue to write in, it requires LaTeX formatting, does WordPress have that capability? Let’s…