Class: Bio::Alignment::Site
- Includes:
- SiteMethods
- Defined in:
- lib/bio/alignment.rb
Overview
Bio::Alignment::Site stores bases or amino-acids in a site of the alignment. It would store multiple String objects of length 1. Please refer to the document of Array and SiteMethods for methods.
Constant Summary
Constants included from SiteMethods
Bio::Alignment::SiteMethods::IUPAC_NUC, Bio::Alignment::SiteMethods::StrongConservationGroups, Bio::Alignment::SiteMethods::WeakConservationGroups
Constants included from PropertyMethods
PropertyMethods::GAP_CHAR, PropertyMethods::GAP_REGEXP, PropertyMethods::MISSING_CHAR
Instance Attribute Summary
Attributes included from PropertyMethods
#gap_char, #gap_regexp, #missing_char, #seqclass
Method Summary
Methods included from SiteMethods
#consensus_iupac, #consensus_string, #has_gap?, #match_line_amino, #match_line_nuc, #remove_gaps!