[Bioperl-l] Re: coding custom Gene object
Thu, 23 Aug 2001 15:55:54 -0600 (CST)
On Thu, 23 Aug 2001, David Block wrote:
> I am just about to commit a Transcript class to bioperl-live in
> that allows you to have a structured gene class.
> The class you want to use is
> which uses said Transcript module.
> This has methods to get,add,flush:
> objects to your transcript. They become those types of features when you
> add them, ie $feature might be a SeqFeature::Generic, but when you do
> $feature becomes a Promoter.
I'm in the midst of testing this code. It seems to work too well. In the
past, $gene->exons() would return the exons in the order put in to the
gene. I by default sort them and return them in order. This breaks some
of the tests.
(a) un_default the sort of exons, or
(b) change the tests, or
(c) something else?
Lost in Saskatoon,