[ensembl-dev] retrieving appris tag from API

[Tiago Grego]

Dear Duarte,

On a transcript you may indeed call is_canonical() and genecode_basic().
You can also call the method tsl() on a transcript object to get the 
corresponding transcript support level.

You are correct that at this time there is no equivalent method to 
directly access the appris tag. I will propose to create that method for 
a future Ensembl release.

In the mean time, you may access the appris tag of a $transcript object 
in the following way:

   my $appris_attr = shift( $transcript->get_all_Attributes('appris') );
   my $appris_tag = $appris_attr->value if $appris_attr;

$appris_tag will contain the corresponding value for the transcript 
object, or be null if it does not exist.

Hope it helps.

Best regards,
Tiago



On 21/11/2018 11:57, Duarte Molha wrote:
> Hi
> 
> I read here:
> https://www.ensembl.org/info/genome/genebuild/transcript_quality_tags.html
> 
> That I can use appris tags to select principal transcripts from my genes 
> of interest, but I have been looking at the documentation and can only find
> is_canonical method and genecode_basic() method
> 
> How do I access the appris tag for my transcripts?
> 
> Many thanks
> 
> Duarte
> 
> 
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