Alignment¶
- class pyfamsa.Alignment¶
An alignment, stored as a list of
GappedSequence
objects.
- class pyfamsa.GappedSequence¶
A gapped sequence, storing a single row in an alignment.
Internally, gapped sequences are not stored in a single string in FAMSA, but using a gap counter for each position. This allows saving a lot of memory for alignments containing lots of gaps, but adds some overhead to decode the full sequence.