## Mathpix Snip

I came across this amazing tool that can convert images of math equations into LaTeX format. The tool can be found at https://mathpix.com/. I’ve tried on a number of texts including some not so clear and it does a fantastic … Continue reading

There is an interesting property that straight chain pathways have which I call front-loading. The phenomenon has been known for some time and I describe it in detail in my recent textbook on Metabolic Control Analysis. Let’s say we have … Continue reading

## Stream Plots Using Tellurium

Every wanted to do a phase plot for a toggle switch or any two-dimensional model? Here is an example of using a stream plot combined with SBML models using Tellurium based on a simple toggle switch.

The colored circles … Continue reading

## Marsaglia’s MWC (multiply with carry) Random Number Generator for Object Pascal

In the past, I’ve tended to use the Mersenne Twister for generating pseudo-random numbers. This is a widely used generator because it has a very long period of 2^{19937} – 1. The one issue is that it’s not the fastest … Continue reading

## A simple bistable system

Here is a simple bistable system I sometimes use in class. I like it because it’s easy to explain plus the addition of one extra reaction turns it into a relaxation oscillator. If you run the above code you’ll get: … Continue reading

## Simulate Regular Doses using Antimony/SBML in the Tellurium Python Tool

Someone recently asked how to create a model where a molecular species received a regular dose at a fixed interval of 12 hours. They wanted something where a species A is being degraded but at regular intevals is increased by … Continue reading

## One of my best friends passed away today

It is with enormous and deep sorrow that one of my best friends in the world passed away today as a result of Hemangiosarcoma. This is where the spleen becomes cancerous which eventually results in fatal hemorrhaging. There is virtually … Continue reading

## Generating log ranges in Python

This is a very short blog on how to generate logarithmic ranges in python: import numpy as np # Brute force x = [0.1, 1, 10, 100, 1000] # Classic explicit loop x = 0.1 for i in range (5): … Continue reading