Download Bioinformatics Biocomputing and Perl: An Introduction to by Paul Barry, Michael Moorhouse PDF

By Paul Barry, Michael Moorhouse

Bioinformatics, Biocomputing and Perl offers a latest advent to bioinformatics computing talents and perform. Structuring its presentation round 4 major parts of research, this booklet covers the abilities very important to the day by day actions of today’s bioinformatician. every one bankruptcy encompasses a sequence of maxims designed to focus on key issues and there are workouts to complement and cement the brought material. 
Working with Perl provides a longer instructional creation to programming via Perl, the best programming expertise of the bioinformatics neighborhood. even if no past programming adventure is believed, finishing the educational equips the reader having the ability to produce strong customized courses conveniently.
Working with Data applies the programming talents obtained to processing quite a few bioinformatics information. as well as suggestion on operating with vital facts shops resembling the Protein DataBank, SWISS-PROT, EMBL and the GenBank, huge dialogue is dedicated to utilizing bioinformatics information to populate relational database systems.  the preferred MySQL database is utilized in all examples.
Working with the Web offers a dialogue of the Web-based applied sciences that let the bioinformatics researcher to put up either facts and purposes on the web.
Working with Applications shifts apparatus from growing customized courses to utilizing them. The instruments defined contain Clustal-W, EMBOSS, STRIDE, BLAST and Xmgrace. An creation to the real Bioperl venture concludes this bankruptcy and rounds off the e-book.

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Extra info for Bioinformatics Biocomputing and Perl: An Introduction to Bioinformatics Computing Skills and Practice

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For now, and by way of introducing regular expressions, a very simple pattern will be used to demonstrate the potential of this programming mechanism. Take a look at the next program, called patterns: #! /usr/bin/perl -w # The ’patterns’ program - introducing regular expressions. while ( $line = <> ) { print $line if $line =~ /even/; } This program is very similar to the getlines program from the last section. Changes were made to the comment, of course, and to the print command within the loop’s block.

6 When using constant values, refer to them with a nice, human-friendly name as opposed to the actual value. This practice has a very important implication. To understand the implication, imagine writing a program that is 3000 lines long. Throughout the program TRUE has been used extensively, appearing in 42 different places in the program. Next, imagine that throughout the program, TRUE has been used, in error, for FALSE. Changing all 42 occurrences of TRUE is as easy as instructing an editor to execute a global search-and-replace, changing all occurrences of TRUE to FALSE.

Another way of saying this would be: If I’m hungry, I’ll eat, otherwise I’ll sleep. And here’s the general form of the selection statement in Perl: if ( some condition is true ) { do something } else { do something else } The first point to note is that the else part of the selection is entirely optional. As expected, the else block is only executed if the condition fails. The if block is executed if the condition is true. Note that, as with loops, blocks of program statements are associated with each part of the selection.

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Bioinformatics Biocomputing and Perl: An Introduction to Bioinformatics Computing Skills and Practice by Paul Barry, Michael Moorhouse


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