By James Tisdall
With its hugely constructed skill to notice styles in facts, Perl has develop into probably the most renowned languages for organic info research. but when you're a biologist with very little programming adventure, beginning out in Perl could be a problem. Beginning Perl for Bioinformatics is designed to get you fast over the Perl language barrier through drawing close programming as an enormous new laboratory ability, revealing Perl courses and strategies which are instantly priceless within the lab. each one bankruptcy makes a speciality of fixing a specific bioinformatics challenge or type of difficulties, beginning with the best and extending in complexity because the publication progresses. every one bankruptcy contains programming routines. by means of the tip of the e-book you'll have an exceptional figuring out of Perl fundamentals, a set of courses for such initiatives as parsing BLAST and GenBank, and the talents to tackle extra complicated bioinformatics programming.
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Additional info for Beginning Perl for Bioinformatics
There are several ways to get started. You can: Take classes of many different kinds Read a tutorial book like this one Get the programming manuals and plunge in Be tutored by a programmer Identify a program you need Try any and all of the above until you've managed to write the program The answer also depends on how you choose to learn. Some people prefer classes, because the information is often presented in a well-organized way, and questions can be answered by the teacher. Others learn best with self-paced study.
In Perl, a scalar variable such as $DNA can hold a string, an integer, a floating-point number (with a decimal point), a boolean (true or false) value, and more. When it's required, Perl figures out what kind of data is in the variable. 4 Transcription: DNA to RNA A large part of what you, the Perl bioinformatics programmer, will spend your time doing amounts to variations on the same theme as Examples 4-1 and 4-2. You'll get some data, be it DNA, proteins, GenBank entries, or what have you; you'll manipulate the data; and you'll print out some results.
Global means "make this substitution throughout the entire string," that is to say, everywhere possible in the string. Figure 4-1. " The substitution operator is an example of the use of regular expressions. Regular expressions are the key to text manipulation, one of the most powerful features of Perl as you'll see in later chapters. 5 Using the Perl Documentation A Perl programmer's most important resource is the Perl documentation. It should be installed on your computer, and it may also be found on the Internet at the Perl site.
Beginning Perl for Bioinformatics by James Tisdall