[Bioperl-l] SimpleAlign is_flush

Bernd Web bernd.web at gmail.com
Wed Dec 5 08:10:04 EST 2007


SimpleAlign has an is_flush:
 Function  : Tells you whether the alignment is flush, i.e. all of the
same length
 Returns   : 1 or 0

I  noticed that a file with multiple fasta sequences with different
lengths has an is_flush  value of 1. Printing the "alignment" shows
that sequences are appended with "-" so that the all are the same
length. Does this mean that is_flush for alignments read in via
AlignIO is indeed always true and thus as such a so useful ?

(using bioperl version: 1.005002102)


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