Bioinformatica 27-10-2011-p4-files

FBW 29-10-2008 Wim Van Criekinge

Programming ,[object Object],[object Object],[object Object],[object Object],[object Object]

Three Basic Data Types ,[object Object],[object Object],[object Object]

[object Object],[object Object],[object Object]

The ‘structure’ of a Hash ,[object Object],[object Object],[object Object],Index Value Key (name) Value ,[object Object]

[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],Printing a hash (continued)

[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],'AUU','I', 'AUC','I', 'AUA','I', 'AUG','M', 'ACU','T', 'ACC','T', 'ACA','T', 'ACG','T', 'AAU','N', 'AAC','N', 'AAA','K', 'AAG','K', 'AGU','S', 'AGC','S', 'AGA','R', 'AGG','R', 'GUU','V', 'GUC','V', 'GUA','V', 'GUG','V', 'GCU','A', 'GCC','A', 'GCA','A', 'GCG','A', 'GAU','D', 'GAC','D', 'GAA','E', 'GAG','E', 'GGU','G', 'GGC','G', 'GGA','G', 'GGG','G' );

[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],Programming in general and Perl in particular

[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],Programming in general and Perl in particular

[object Object],[object Object]

File input / output ,[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object]

File input / output ,[object Object],[object Object],[object Object],[object Object]

File input / output ,[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object]

Using filehandles for writing ,[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object]

[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],Using filehandles for reading (2/3)

[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],Using filehandles for reading (1/3)

[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],Using filehandles for reading (3/3)

1. Swiss-Knife.pl ,[object Object],[object Object],[object Object],[object Object],[object Object],[object Object]

Amino acid frequencies ,[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],Second step: Frequencies of Occurence

Parser.pl ,[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object]

2. PAM-simulator.pl ,[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object]

[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object]

Dayhoff’s PAM1 mutation probability matrix (Transition Matrix)

Weighted Random Selection ,[object Object]

[object Object],[object Object],[object Object],[object Object],[object Object],[object Object]

Palin.fasta ,[object Object],[object Object]

Palingram.pl ,[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],print "Set van palingram"; while(($key, $value) = each (%palhash)) { print "$key => $value"; }

Bioinformatica 27-10-2011-p4-files

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Bioinformatica 27-10-2011-p4-files