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Methods
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H2P
__init__
__str__
getGHMMmatrices
get_dom
globalConfig
set_matrix
write_prettyxml
write_xml
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H2P
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H2P (
self,
score,
null_prob,
)
returns the probability
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__init__
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__init__ ( self, strf )
print "start __init__"
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__str__
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__str__ ( self )
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getGHMMmatrices
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getGHMMmatrices ( self )
Converts the MODHMMER matrix format into matrices to
be used in ghmm.HMMFromMatrices.
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get_dom
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get_dom ( self )
returns DOM object
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globalConfig
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globalConfig ( self )
Configures HMM for global Needelman-Wunsch alignments.
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set_matrix
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set_matrix (
self,
type,
lis,
offset=0,
)
fills matrix with values from line <type> and adds optional offset
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write_prettyxml
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write_prettyxml ( self, strf )
writes hmm in pretty xml format to file
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write_xml
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write_xml ( self, strf )
writes hmm in xml format to file
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