With the right data you can predict the future.
Below is Nate Silvers 538 prediction and the actual results, side by side.
Bringing your ideas to life.
By building scalable web applications and data mining them for key business insights, I am ready to bring your ideas from the drawing board to fully functional software.
If you’re interested contact me at blakedallen ( at.) [gmail] .com
I recently spoke with Kevin Karplus a professor at UCSC about what constitutes excellent code writing. What Karplus stated was that, “clean decomposition into specific subproblems” was essential for excellent code.
No-one has completely summed it up so perfectly for me before. It seems so clear. When you make an engine for a car for instance, you don’t want the fuel tank to double as a radiator. Everything has been atomized into its specific components. So when making a program why would you have a main function that attempts to do fifty things? By breaking everything into functions and modules where appropriate… one can atomize their program and write more efficiently. Whats really important is that this style of writing can create a a stream of clarity.
Below I have included some of the code I use in Kevins BME 205 class. This function employs clear breakdown of subproblems in the main loop, where the use of a generator function maintains clearly legible code.
Learning Bioinformatics can be a daunting task… learning how to program alone is very daunting for most people. I am now building a site to help people learn bioinformatics, its called how to bioinformatics
If you looking to learn how to get your foot in the door into complex sequence analysis, and your just learning how to program, check out my website for some free tutorials on python and getting started in bioinformatics.
Neutral (or silent or synonymous) mutations occur when the change of a single DNA nucleotide (A,T,C,G) within a gene does not affect the sequence of amino acids that make up the gene’s protein (15). The sequence of amino acids determines the 3-D structure of the protein, and that determines the function of the protein in the cell, and that determines the fitness of the organism. So, if the protein is not changed it will have no effect on the phenotype and the fitness of the organism. In other words: it will be neutral.
My thoughts: There are no neutral mutations. A mutation that creates a synonomous codon will still effect transcription frequency, either increasing frequency or decreasing frequency. The tRNA, responsible for retrieving a specific base, may be under or overexpressed for the mutated codon. Even though the codon codes for the same amino acid the speed at which a protein is translated will be effected. This could have many downstream effects.
Is python the best programming language for Bioinformatics?
When your learning a programming language for bioinformatics, it’s important to pick one that will not only be useful now, but 5-10 years in the future. Currently python is the most popular scripting language for bioinformatics, and theres plenty of reasons why.
Speaking of great libraries, if you want to do something in python, just import it. (chances are someone has already written the low level stuff for you)
Check out this great strip from XKCD:
Useful information for aspiring bioinformaticians out there:
A Quick Guide for Developing Effective Bioinformatics Programming Skills
Trying to use your favorite editor Coda (from Panic!) to write in C or C++?
After scouring the internet to find the answer I landed on this blog post by falken creative.
Here’s his easy to use solution to adding a color scheme for C/C++ and more… in Coda: