de/d0c/_bio_clustal_8h_source.html

00001 /****************************************************************************
00002 ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++
00003 The BioBhasha : The Biologist's Programming Language
00004 Version 1.0 (19th December 2001)
00005 Prasad, B.V.L.S.
00006 Contact: burrashiva@yahoo.com
00007 ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++
00008 *****************************************************************************/
00009 #ifndef BIOCLUSTAL_H
00010 #define BIOCLUSTAL_H
00011
00012 #include <string>
00013 #include "BioSequence.h"
00014 #include "BioMultipleSequences.h"
00015 #include <map>
00016
00017 class BioClustal  : public BioMultipleSequences
00018 {
00019   private:
00020         vector<int> match_pos, similar_pos;
00021   public:
00022         BioClustal(const string& );
00023         vector<int> getMatchColumnPositions();
00024         vector<int> getSimilarColumnPositions();
00025         vector<int> getConservedColumnPositions();
00026         vector<char> getColumn(int index);
00027 };
00028
00029 #endif