Biology, Computation, Data analysis, Math Modeling, Statistics

What makes a model good?

How can we identify a good mathematical model? Over focusing on one aspect of modeling (fitting, inference) may not be the best approach. Here are 6 qualities that defines a good model: Reflects data accurately Not overly complex Has predictive power Consistent with general knowledge of the system Can be studied mathematically Can be simulated… Continue reading What makes a model good?

Biology, Computation, Math Modeling

Iterative curve fitting of biological systems

As I discussed in my post on sensitive parameters, optimizing parameter values may sometimes be difficult for reasons other than a poorly defined model. Initial parameter values have a high impact on the ability of the optimizer to find a solution, unless you are using a global optimizer. The solution is iterative curve fitting. What… Continue reading Iterative curve fitting of biological systems

Biology, Computation

Basic Mathematical Biology Programming Part II

Programming elements that are used to perform basic mathematical calculations include: Arrays Matrices Equations or Simple functions Math functions See my previous post about the first two here. This post will deal with the latter two.  Equations or Simple functions The simplest problem to be solved via programming would be the solution to a single… Continue reading Basic Mathematical Biology Programming Part II

Biology, Computation

Basic Mathematical Biology Programming Part I

Programming elements that are used to perform basic mathematical calculations include: Arrays Matrices Equations or Simple functions Math functions This post will deal with the first two. Arrays Sets are common in mathematical biology : response values, independent values, time units, gene or protein names. These sets can be expressed as arrays. The two most… Continue reading Basic Mathematical Biology Programming Part I