Counting gaps per sequence¶

We have several different ways of counting sequence gaps, and of visualising the results. By default, the count_gaps_per_seq() method returns a matrix of counts without the ability to visualise the results. When setting the argument unique=True, the counts are for gaps uniquely induced by each sequence. This can be a useful indicator of highly divergent sequences.

from cogent3 import load_aligned_seqs

counts = aln.count_gaps_per_seq(unique=True)
counts

counts = aln.count_gaps_per_seq(unique=True, drawable='bar')