Conference Program

Tutorial Track 1

Title:  Perl Tools for Bioinformatics
Presenter:  Pete Carswell, Ohio Supercomputer Center
Abstract:  Perl is a general-purpose interpreted language that is optimized for text and file manipulation, I/O, and system tasks. It provides a simple and efficient way to do many jobs and acts as a compliment to traditional programming languages (C/C++), shell scripting languages and editors or Internet CGI. Perl is available for most computing environments and can be downloaded and installed free of charge.  Perl is an ideal scripting language for processing files, looking for a particular pattern of characters, or for reformatting data tables. This powerful regular expression capability for pattern matching and integral file manipulation are invaluable for bioinformatics, where it is common to look for motifs within sequences or rearrange one database format into another.

During this talk we will cover a broad range of the core features of the Perl Programming Language, highlighting specific bioinformatics problems and their solutions using Perl scripts. These applications would include such popular bioinformatics tools as PDB, FASTA and BLAST. Additionally, we will discuss BioPerl, a collection of Perl classes, or code, used to analyze objects representing biological entities.

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