Index

A

add() (fastsk.old_utils.Vocabulary method) (fastsk.utils.Vocabulary method)

alphabet (fastsk.old_utils.GkmRunner attribute) ArabicUtility (class in fastsk.old_utils)

B

BlendedSpectrumRunner (class in fastsk.old_utils)

C

classify() (fastsk.old_utils.GkmRunner method) combine_train_and_test() (fastsk.old_utils.BlendedSpectrumRunner method) (fastsk.old_utils.GaKCoRunner method) compute_kernel() (fastsk.old_utils.BlendedSpectrumRunner method) (fastsk.old_utils.GaKCoRunner method)

compute_train_kernel() (fastsk.old_utils.FastskRegressor method) (fastsk.old_utils.FastskRunner method) (fastsk.old_utils.GkmRunner method)

D

DslUtility (class in fastsk.old_utils)

E

evaluate() (fastsk.old_utils.GkmRunner method) evaluate_clf() (fastsk.old_utils.BlendedSpectrumRunner method) (fastsk.old_utils.FastskRunner method) (fastsk.old_utils.GaKCoRunner method)

F

FastaUtility (class in fastsk.old_utils) (class in fastsk.utils) fastsk module fastsk.old_utils module

fastsk.utils module fastsk_wrap() (in module fastsk.old_utils) FastskRegressor (class in fastsk.old_utils) FastskRunner (class in fastsk.old_utils)

G

g (fastsk.old_utils.GkmRunner attribute) GaKCoRunner (class in fastsk.old_utils) get_accuracy() (fastsk.old_utils.GkmRunner method)

get_auc() (fastsk.old_utils.GkmRunner method) get_labels() (fastsk.old_utils.GaKCoRunner method) gkm_wrap() (in module fastsk.old_utils) GkmRunner (class in fastsk.old_utils)

K

k (fastsk.old_utils.GkmRunner attribute)

M

max_m (fastsk.old_utils.GkmRunner attribute) module fastsk fastsk.old_utils fastsk.utils

R

read_data() (fastsk.old_utils.ArabicUtility method) (fastsk.old_utils.DslUtility method) (fastsk.old_utils.FastaUtility method) (fastsk.utils.FastaUtility method)

read_kernel() (fastsk.old_utils.BlendedSpectrumRunner method) (fastsk.old_utils.GaKCoRunner method) read_labels() (fastsk.old_utils.GaKCoRunner method) read_preds() (fastsk.old_utils.GkmRunner method)

S

shortest_seq() (fastsk.old_utils.FastaUtility method) (fastsk.utils.FastaUtility method)

size() (fastsk.old_utils.Vocabulary method) (fastsk.utils.Vocabulary method)

T

time_blended() (in module fastsk.old_utils) time_fastsk() (in module fastsk.old_utils) time_gakco() (in module fastsk.old_utils) time_gkm() (in module fastsk.old_utils) train_and_test() (fastsk.old_utils.BlendedSpectrumRunner method) (fastsk.old_utils.FastskRegressor method) (fastsk.old_utils.FastskRunner method) (fastsk.old_utils.GaKCoRunner method) (fastsk.old_utils.GkmRunner method)

train_and_test_fastsk() (in module fastsk.old_utils) train_and_test_gkm() (in module fastsk.old_utils) train_svm() (fastsk.old_utils.GkmRunner method)

V

Vocabulary (class in fastsk.old_utils) (class in fastsk.utils)

W

write_seq() (fastsk.old_utils.BlendedSpectrumRunner method)