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python-biopython  1.60
Classes | Namespaces | Functions | Variables
MarkovModel.py File Reference

Go to the source code of this file.

Classes

class  Bio.MarkovModel.MarkovModel

Namespaces

namespace  Bio.MarkovModel

Functions

def Bio.MarkovModel.logaddexp
def Bio.MarkovModel.itemindex
def Bio.MarkovModel._readline_and_check_start
def Bio.MarkovModel.load
def Bio.MarkovModel.save
def Bio.MarkovModel.train_bw
def Bio.MarkovModel._baum_welch
def Bio.MarkovModel._baum_welch_one
def Bio.MarkovModel._forward
def Bio.MarkovModel._backward
def Bio.MarkovModel.train_visible
def Bio.MarkovModel._mle
def Bio.MarkovModel._argmaxes
def Bio.MarkovModel.find_states
def Bio.MarkovModel._viterbi
def Bio.MarkovModel._normalize
def Bio.MarkovModel._uniform_norm
def Bio.MarkovModel._random_norm
def Bio.MarkovModel._copy_and_check
def Bio.MarkovModel._logsum
def Bio.MarkovModel._logvecadd
def Bio.MarkovModel._exp_logsum

Variables

 Bio.MarkovModel.logaddexp = numpy.logaddexp
int Bio.MarkovModel.VERY_SMALL_NUMBER = 1
tuple Bio.MarkovModel.LOG0 = numpy.log(VERY_SMALL_NUMBER)
int Bio.MarkovModel.MAX_ITERATIONS = 1000