[Bioperl-l] Errors using Bio::Assembly

[Robson Francisco de Souza]

On Sat, 1 Feb 2003 anunberg at oriongenomics.com wrote:
[snip]
>  Also, the high_quality_discrepancies returns 
> an array of Bio::SeqFeatures::Generic objects yes? but in the web 
> documentation it says a SeqFeature Collection object.

	Yes, the documentation is incorrect. All methods in
Bio::Assembly::ContigAnalysis return arrays, not collections. I'll fix
that. 

> My ace files are not in the context of phredphrap. I only save the ace 
> files themselves.  I think I will attempt to right a method that will do 
> high qual discrepancies based on the ace file itself.

	Which program builds your ace files? Phrap, CAP3? Maybe I can add
support for it...

				Robson