00001 #ifndef __VIENNA_RNA_PACKAGE_ALI_PLEX_H__
00002 #define __VIENNA_RNA_PACKAGE_ALI_PLEX_H__
00003
00004 #include "data_structures.h"
00008 duplexT** aliLduplexfold( const char *s1[],
00009 const char *s2[],
00010 const int threshold,
00011 const int extension_cost,
00012 const int alignment_length,
00013 const int delta,
00014 const int fast,
00015 const int il_a,
00016 const int il_b,
00017 const int b_a,
00018 const int b_b);
00022 duplexT** aliLduplexfold_XS(const char* s1[],
00023 const char* s2[],
00024 const int **access_s1,
00025 const int **access_s2,
00026 const int threshold,
00027 const int alignment_length,
00028 const int delta,
00029 const int fast,
00030 const int il_a,
00031 const int il_b,
00032 const int b_a,
00033 const int b_b);
00034
00035
00036
00037
00038
00039
00040 #endif