[Bioperl-l] http://www.bioperl.org/wiki/Bptutorial.pl

Mauricio Herrera Cuadra arareko at campus.iztacala.unam.mx
Sat Jun 24 11:27:03 EDT 2006


Hi Philip,

Have you tried the Deobfuscator interface? It's a newer and better way 
to browse all the methods available in BioPerl:

http://bioperl.org/wiki/Deobfuscator
http://bioperl.org/cgi-bin/deob_interface.cgi

Regards,
Mauricio.

Phillip SanMiguel wrote:
> Brian Osborne wrote:
>> Jay,
>>
>> Excellent! Now we need to answer a few more questions for ourselves:
>>
>> - Do we remove the file bptutorial.pl from the package now? I'd say yes, we
>> don't want to have to maintain two bptutorials.
>>   
> I would be very disappointed to lose one part of bptutorial.pl--this was 
> described in Tisdall's _Mastering Perl for Bioinformatics_. It is the 
> only purpose I've ever used bptutorial.pl for--to find all the methods 
> available to any given object. Eg:
> 
> bptutorial.pl 100 Bio::PrimarySeq
> 
>  ***Methods for Object Bio::PrimarySeq ********
> 
> 
>  Methods taken from package Bio::IdentifiableI
>  lsid_string   namespace_string
> 
>  Methods taken from package Bio::PrimarySeq
>  accession   accession_number   alphabet   authority   can_call_new   desc
>  description   direct_seq_set   display_id   display_name   id   is_circular
>  length   namespace   new   object_id   primary_id   seq
>  subseq   validate_seq   version
> 
>  Methods taken from package Bio::PrimarySeqI
>  moltype   revcom   translate   trunc
> 
>  Methods taken from package Bio::Root::Root
>  DESTROY   confess   debug   throw   verbose
> 
>  Methods taken from package Bio::Root::RootI
>  carp   deprecated   stack_trace   stack_trace_dump   
> throw_not_implemented   warn
>  warn_not_implemented
> 
> 
> Phillip SanMiguel
> 
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> 

-- 
MAURICIO HERRERA CUADRA
arareko at campus.iztacala.unam.mx
Laboratorio de Genética
Unidad de Morfofisiología y Función
Facultad de Estudios Superiores Iztacala, UNAM



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