[Bioperl-l] Bio::Graphics : To change scale color & sort and add direction to SeqFeature

Sendu Bala bix at sendu.me.uk
Mon Aug 13 11:01:43 EDT 2007


Shameer Khadar wrote:
>> However, do your binding sites really have a direction? That is, do you
>> really know which strand your transcription factor bound to?
 >
> Yes, these info we collated from various experimental datasets.

Well, those datasets I'd like to see... What I was getting at is the 
strand probably isn't known at the experimental level, but to describe 
the site a strand has to be arbitrarily picked so you can write the 
sequence of the site down as a single string. Its probably the case that 
the strand information you have is just the way it happened to be 
reported in the literature and has no biological meaning.



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