生物资讯程式设计实习(二).pptVIP

96-Summer生物資訊程式設計實習(二)Bioinformatics with Perl8/13~8/22 蘇中才8/24~8/29 張天豪8/31 曾宇鳯1第一页，共七十八页。 ScheduleDateTimeSubjectSpeaker8/13 一13:30~17:30Perl Basics蘇中才8/15 三13:30~17:30Programming Basics蘇中才8/17 五13:30~17:30Regular expression蘇中才8/20 一13:30~17:30Retrieving Data from Protein Sequence Database蘇中才8/22 三13:30~17:30Perl combines with Genbank, BLAST蘇中才8/24 五13:30~17:30PDB database and structure files張天豪8/27 一8:30~12:30Extracting ATOM information張天豪8/27 一13:30~17:30Mapping of Protein Sequence IDs and Structure IDs張天豪8/31五13:30~17:30Final and Examination曾宇鳳2第二页，共七十八页。 Reference BooksLearning Perl(Perl 學習手冊)Beginning Perl for BioinformaticsBioinformatics Biocomputing and Perl: An Introduction to Bioinformatics Computing Skills and Practice3第三页，共七十八页。 4第四页，共七十八页。 Learning Perl5第五页，共七十八页。 PerlPractical Extraction and Report LanguageCreated by Larry Wall in the middle 1980`s.Suitable for “quick-and-dirty”Suitable for string-handlingPowerful regular expression6第六页，共七十八页。 PreparationDownloading putty.exe / pietty.exeGetting materials for this course: Server: ssh 140.112.28.186Id : course1 ~ course20Password:7第七页，共七十八页。 Installing Perl on Windows8第八页，共七十八页。 Text EditorsA convenient (text) editor for programmingUltraedit: good for meNotepad: just an editorVim: UNIX/Linux loverJoe : easy to use for Unix beginner9第九页，共七十八页。 Finding Help10第十页，共七十八页。 Perl BasicStarting11第十一页，共七十八页。 $ vi welcome#! /usr/bin/perl -wprint “Hello, world\n”;$ chmod +x welcome$ ./welcomeHello, world$ perl welcomeHello, worldProgram: run thyself![sbb@gene perl]$ ls -al-rw-rw-r-- 1 sbb sbb 20 Jul 2 15:27 welcome[sbb@gene perl]$ chmod +x welcome[sbb@gene perl]$ ls -al-rwxrwxr-x 1 sbb sbb 20 Jul 2 15:27 welcome12第十二页，共七十八页。 #! /usr/bin/perl -w# The forever program - a (Perl) program,# which does not stop until someone presses Ctrl-C.use constant TRUE = 1;use constant FALSE = 0;while ( TRUE ){ print Welcome to the Wonderful World of Bioinformatics!\n; sleep 1;}Using the Perl while construct13第十三页，