public static void Main() {
modshogun.init_shogun_with_defaults();
int order = 3;
int gap = 0;
bool reverse = false;
bool use_sign = false;
String[] fm_train_dna = Load.load_dna("../data/fm_train_dna.dat");
String[] fm_test_dna = Load.load_dna("../data/fm_test_dna.dat");
double[] fm_test_real = Load.load_labels("../data/fm_test_real.dat");
StringCharFeatures charfeat = new StringCharFeatures(EAlphabet.DNA);
charfeat.set_features(fm_train_dna);
StringWordFeatures feats_train = new StringWordFeatures(charfeat.get_alphabet());
feats_train.obtain_from_char(charfeat, order-1, order, gap, reverse);
SortWordString preproc = new SortWordString();
preproc.init(feats_train);
feats_train.add_preprocessor(preproc);
feats_train.apply_preprocessor();
StringCharFeatures charfeat_test = new StringCharFeatures(EAlphabet.DNA);
charfeat_test.set_features(fm_test_dna);
StringWordFeatures feats_test = new StringWordFeatures(charfeat.get_alphabet());
feats_test.obtain_from_char(charfeat_test, order-1, order, gap, reverse);
feats_test.add_preprocessor(preproc);
feats_test.apply_preprocessor();
HammingWordDistance distance = new HammingWordDistance(feats_train, feats_train, use_sign);
double[,] dm_train = distance.get_distance_matrix();
distance.init(feats_train, feats_test);
double[,] dm_test = distance.get_distance_matrix();
}
public static void Main()
{
modshogun.init_shogun_with_defaults();
int order = 3;
int gap = 0;
bool reverse = false;
bool use_sign = false;
String[] fm_train_dna = Load.load_dna("../data/fm_train_dna.dat");
String[] fm_test_dna = Load.load_dna("../data/fm_test_dna.dat");
double[] fm_test_real = Load.load_labels("../data/fm_test_real.dat");
StringCharFeatures charfeat = new StringCharFeatures(EAlphabet.DNA);
charfeat.set_features(fm_train_dna);
StringWordFeatures feats_train = new StringWordFeatures(charfeat.get_alphabet());
feats_train.obtain_from_char(charfeat, order - 1, order, gap, reverse);
SortWordString preproc = new SortWordString();
preproc.init(feats_train);
feats_train.add_preprocessor(preproc);
feats_train.apply_preprocessor();
StringCharFeatures charfeat_test = new StringCharFeatures(EAlphabet.DNA);
charfeat_test.set_features(fm_test_dna);
StringWordFeatures feats_test = new StringWordFeatures(charfeat.get_alphabet());
feats_test.obtain_from_char(charfeat_test, order - 1, order, gap, reverse);
feats_test.add_preprocessor(preproc);
feats_test.apply_preprocessor();
HammingWordDistance distance = new HammingWordDistance(feats_train, feats_train, use_sign);
double[,] dm_train = distance.get_distance_matrix();
distance.init(feats_train, feats_test);
double[,] dm_test = distance.get_distance_matrix();
modshogun.exit_shogun();
}
internal static HandleRef getCPtr(HammingWordDistance obj)
{
return((obj == null) ? new HandleRef(null, IntPtr.Zero) : obj.swigCPtr);
}
