Here are the classes, structs, unions and interfaces with brief descriptions:

CFlagHandler
CFlagInfo
CMSAReader
CMSAReader_a2m
CMSAReader_a3m
CMSAReader_aln
CMSAReader_clustal
CMSAReader_fasta
CMSAReader_pfam
CMSAReader_sto
CMSAWriter
CMSAWriter_a2m
CMSAWriter_a3m
CMSAWriter_aln
CMSAWriter_clustal
CMSAWriter_fasta
CMSAWriter_pfam
CMSAWriter_sto
CMultimerHandler
CSequence