.. autosummary::
   :toctree: generated/
   
   lingpy.align.multiple.Multiple
   lingpy.align.sca.Alignments
   lingpy.align.sca.MSA
   lingpy.align.pairwise.Pairwise
   lingpy.align.multiple.Multiple.get_pairwise_alignments 	
   lingpy.align.multiple.Multiple.get_peaks 	
   lingpy.align.multiple.Multiple.get_pid 	
   lingpy.align.multiple.Multiple.iterate_all_sequences 	
   lingpy.align.multiple.Multiple.iterate_clusters 	
   lingpy.align.multiple.Multiple.iterate_orphans 	
   lingpy.align.multiple.Multiple.iterate_similar_gap_sites 	
   lingpy.align.multiple.Multiple.lib_align 	
   lingpy.align.multiple.Multiple.prog_align 	
   lingpy.align.multiple.Multiple.sum_of_pairs 	
   lingpy.align.multiple.Multiple.swap_check
   lingpy.align.sca.MSA.get_pairwise_alignments 	
   lingpy.align.sca.MSA.get_peaks 	
   lingpy.align.sca.MSA.get_pid 	
   lingpy.align.sca.MSA.iterate_all_sequences 	
   lingpy.align.sca.MSA.iterate_clusters 	
   lingpy.align.sca.MSA.iterate_orphans 	
   lingpy.align.sca.MSA.iterate_similar_gap_sites 	
   lingpy.align.sca.MSA.lib_align 	
   lingpy.align.sca.MSA.prog_align 	
   lingpy.align.sca.MSA.sum_of_pairs 	
   lingpy.align.sca.MSA.swap_check
   lingpy.align.pairwise.Pairwise.align
   lingpy.align.sca.PSA.align
   lingpy.align.sca.PSA.output
   lingpy.align.sca.SCA
   lingpy.align.sca.Alignments.align
   lingpy.align.sca.PSA


