Class to represent a gene.
|
|
__init__(self,
name,
product,
promoter=None,
dot_attrs=None)
x.__init__(...) initializes x; see x.__class__.__doc__ for signature |
source code
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
getConstitutiveValueNodes(self)
Get a list of constant value nodes from all constitutive promoter
elements of this gene. |
source code
|
|
|
|
getActivateSpecValueNodes(self)
Get a list of constant value nodes from all spec ("K_M")
parameters to activate promoter elements. |
source code
|
|
|
|
getActivateMaxValueNodes(self)
Get a list of constant value nodes from all max ("v_max")
parameters to activate promoter elements. |
source code
|
|
|
|
getRepressSpecValueNodes(self)
Get a list of constant value nodes from all spec ("K_M")
parameters to repress promoter elements. |
source code
|
|
|
|
getRepressMaxValueNodes(self)
Get a list of constant value nodes from all max ("v_max")
parameters to repress promoter elements. |
source code
|
|
|
|
getLinkValueNodes(self)
Get a list of constant value nodes from all link promoter elements
(activate, repress) of this gene. |
source code
|
|
|
|
getValueNodes(self)
Get a list of constant value nodes from all promoter elements of this
gene. |
source code
|
|
|
|
getIdentifierNodes(self)
Get a list of identifier nodes from all promoter elements of this
gene. |
source code
|
|
|
|
| write_dot_node(self,
f,
dot_parameters,
transsys) |
source code
|
|
|
|
write_dot_edges(self,
f,
dot_parameters,
transsys)
write edges directed towards this gene |
source code
|
|
|
|
regulating_factors(self)
return a list of factors that regulate expression of this gene |
source code
|
|
|
|
canonicalise(self)
Canonicalise parameters in promoter elements. |
source code
|
|
|
Inherited from object:
__delattr__,
__getattribute__,
__hash__,
__new__,
__reduce__,
__reduce_ex__,
__repr__,
__setattr__
|