[Bioperl-l] haplotype

[Ewan Birney]

On Wed, 5 Nov 2003, Pedro wrote:

> Dear developers,
> 
> I have done some work on SNP haplotypes. I have created two modules 
> one to find the ht_SNP set and another one to tag the minimal set of 
> an haplotype.
> 
> I would like to contibute to bioperl these two modules.
> 
> The modules could be under:
> 
>      Bio::Haplotype::Select
>      Bio::Haplotype::Tag
> 
> I also have stand alone examples about how the code is working and 
> about what to input and what you get from the module.
> 

It would be great if you could show a little synopsis of how a client
would use objects

  # entirely making this up 

  $hap = Bio::Haplotype::Select->new(xxxxxx);

  @tags = $hap->get_tag_snps();

  foreach $tag ( @tags ) {
     # do something interesting, like writing out the allele.
  }


> I would like also to know if there is any perl style to follow. Any 
> documentation about that?

In bioperl release there is biodesign.pod which gives you some hints.

> 
> If you think this can be insteresting for bioperl, please let me know.
> 

I am sure this would be and I would be happy to help you do conversion 
into bioperl style...



> Cheers
> Pedro
> 
> 
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> 

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Ewan Birney. Mobile: +44 (0)7970 151230, Work: +44 1223 494420
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