Bioinformatics Zen

One of the differences between researching a scientific problem using a computer, and developing software, is the approach to writing code. If you’re producing a bioinformatics application there is more emphasis on generating high quality, flexible code, as this makes future maintenance easier. On the other hand if you’re trying to find the answer to a biological question using a series of scripts, then the focus is on the results, rather than the standard of code. During my work, the number of scripts I have tends to grow quickly, and this leads to problems with maintaining dependencies across scripts. Examples of this can be database connection parameters, or the file system location of a library I’m calling. This is because the fastest way to get this information into a script, is to cut and paste from an already existing one. However this becomes difficult to manage, when something changes, because I have to go back through all my scripts and update each in turn.

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In World of Bioinformatics Quest^TM (WoBQ) having the right character that suits your style is essential. You may think that a hot shot Rubyist is the coolest class to be, but remember that you have to play this character for the next 50 years. In general it’s better to be a character that you’ll enjoy playing, rather than one that will get you more publications but have less fun with. This page will guide you through all the parts of character generation for WoBQ.

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