00001 #ifndef __VIENNA_RNA_PACKAGE_SUBOPT_H__
00002 #define __VIENNA_RNA_PACKAGE_SUBOPT_H__
00003
00004 typedef struct svm_model{
00005 struct svm_parameter param;
00006 int nr_class;
00007 int l;
00008 struct svm_node **SV;
00009 double **sv_coef;
00010 double *rho;
00011 double *probA;
00012 double *probB;
00013 int *label;
00014 int *nSV;
00015 int free_sv;
00016 } svm_model;
00017
00018 extern char *avg_model_string;
00019 extern char *sd_model_string;
00020
00021 float get_z(char *sequence,
00022 double energy);
00023 double avg_regression (int N,
00024 int A,
00025 int C,
00026 int G,
00027 int T,
00028 struct svm_model *avg_model,
00029 int *info );
00030 double sd_regression (int N,
00031 int A,
00032 int C,
00033 int G,
00034 int T,
00035 struct svm_model *sd_model);
00036 double minimal_sd (int N,
00037 int A,
00038 int C,
00039 int G,
00040 int T);
00041 svm_model *svm_load_model_string(char *modelString);
00042 int *get_seq_composition( short *S,
00043 unsigned int start,
00044 unsigned int stop);
00045
00046 #endif
