[Bioperl-l] question for all regarding a sam-based Bio::Assembly::IO

[Mark A. Jensen]

Short-readers, 

I'm working on an Assembly::IO class for sam alignments.
I'm currently making a decision about handling multiple reference sequences:
would you prefer that next_assembly() return an assembly that covers all reference
sequences, or that next_assembly iterates over each reference sequence?
(Or both?)

thanks for your input-
MAJ