#ifndef VIENNA_RNA_PACKAGE_DUPLEX_H
#define VIENNA_RNA_PACKAGE_DUPLEX_H

#include <ViennaRNA/data_structures.h>

/**
 *  @file     duplex.h
 *  @ingroup  cofold
 *  @brief    Functions for simple RNA-RNA duplex interactions
 */


duplexT duplexfold( const char *s1,
                    const char *s2);

duplexT *duplex_subopt( const char *s1,
                        const char *s2,
                        int delta,
                        int w);

duplexT aliduplexfold(const char *s1[],
                      const char *s2[]);

duplexT *aliduplex_subopt(const char *s1[],
                          const char *s2[],
                          int delta,
                          int w);

#endif