Mastering Perl for Bioinformatics [Electronic resources] نسخه متنی

4.4 Resources

Inheritance is a fundamental OO technique; see Section 3.14 for Perl OO reference material that
includes discussion of inheritance.

For programming with sequence data file formats, see the C program
readseq by Don Gilbert (at http://iobio.bio.indiana.edu/soft/molbio/readseq).

See the Bioperl project at http://www.bioperl.org for alternate ways to
handle this programming task in Perl.

For a more rigorous but slower approach to parsing sequence files
(which is sometimes what you want) see the module
Parse::RecDescent by Damien Conway at CPAN.

Each sequence file format has documentation that describes it. These
formats sometimes change to keep up with the changing nature of
biological data. One of the following exercises challenges you to
find the documentation for one of the formats and to improve the code
in this chapter for that format.