mathematical biology, statistics, and more
I am replacing a small Radeon 5450 graphics card with a CUDA capable GTX 1050 Ti that I can use for GPU computing. Please ignore my terrible cable management. I will fix it one day... Overview of the steps mentioned here: Set up work area Remove screws around installation area Remove the card and identify the… Continue reading How To Install a Graphics Card
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
It's no secret that academia is high stress. Graduate students often acquire mental issues due to high stress. It's important to realize that it isn't weakness and indeed a reasonable response to the environment. Take matters into your own hands and value mental health over perceived consequences of seeking help.
Identifying the sensitive parameter(s) in a system of equations is not so much difficult as not often considered during the problem solving process. As the term implies, the degree to which a parameter is sensitive will be visible by the effect it's values have on the simulation. It is analogous to the effect of a… Continue reading Identifying sensitive parameters
Aristotle was one of the first philosophers to posit that man desires happiness first and foremost. His answer to this drive for happiness was the golden mean. The golden mean sits between the two extremes - excess and deficiency. He believed that moderation between two extremes of behavior would produce happiness. This is somewhat in… Continue reading Aristotle’s Golden Mean
There are two broad categories of models: statistical and mathematical. Statistical Models Statistical models are a subset of mathematical models. I am dividing them into two broad categories, although it is a fairly arbitrary distinction. Models to Identify Relationships Statistical models may be used to find relationships between inputs and outputs of a system. These… Continue reading Different Types of Models: Mathematical and Statistical
Camus wrote "The Myth of Sisyphus" after the suicide of his wife. He wanted to prove that life was worth living, despite its inherent absurdity. Camus described four steps of realizing that life is absurd: - The realization that our core beliefs may be wrong. - Mundane repetition of daily activities. - Realization that it… Continue reading We must imagine Sisyphus happy
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
Big data can be intimidating, but sorting and extracting information becomes easy when a sort of mental 'algorithm' is applied. The pseudocode is in ~Matlab notation, but the basic concepts apply to any programming language. Step 1: Observe layout of raw data Raw data will have some kind of format connecting 'inputs' and 'outputs'. For… Continue reading Data sorting for noobs
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
i am become computational 