Can someone explain how the score is calculated for Bio.Blast.Record.Description? For example, if Record.Description.num_alignments is >1, is Record.Description.score simply the sum of the alignment scores for the description's hit? Can alignments overlap? How does the score of a given alignment deal with the scores of overlapping HSPs in that alignment?
I'm getting the Blast.Record object via NCBIXML.parse(), and would like to rely on the description data as much as possible to remove the need for code that parses the Record.Alignments objects, but I'm a nervous including things when I don't know exactly how they were created.
Cheers! Tim
