def motif3struct(cmatrix, weighted):
""" Counts occurrences of three-node structural motifs
Parameters
----------
cmatrix : connection/adjacency matrix
(For weighted graph W(all weights [0,1]) )
weighted : {False, True}
Returns
-------
weighted == True:
I : Returns intensity and (optionally) coherence and motif counts.
Weighted structural motif metrics.
Reference: Onnela et al. 2005, Phys Rev E 71:065103;
Mika Rubinov, UNSW, 2007 (last modified July 2008)
weighted == False:
f : binary motif count
Reference: Milo et al., 2002, Science
Mika Rubinov, UNSW, 2007 (last modified July 2008)
"""
if weighted:
m = bct.to_gslm(cmatrix.tolist())
str = bct.motif3struct_wei(m)
strnp = bct.from_gsl(str)
bct.gsl_free(m)
bct.gsl_free(str)
return np.asarray(strnp)
else:
m = bct.to_gslm(cmatrix.tolist())
str = bct.motif3struct_bin(m)
strnp = bct.from_gsl(str)
bct.gsl_free(m)
bct.gsl_free(str)
return np.asarray(strnp)
def motif3struct(cmatrix, weighted):
""" Counts occurrences of three-node structural motifs
Parameters
----------
cmatrix : connection/adjacency matrix
(For weighted graph W(all weights [0,1]) )
weighted : {False, True}
Returns
-------
weighted == True:
I : Returns intensity and (optionally) coherence and motif counts.
Weighted structural motif metrics.
Reference: Onnela et al. 2005, Phys Rev E 71:065103;
Mika Rubinov, UNSW, 2007 (last modified July 2008)
weighted == False:
f : binary motif count
Reference: Milo et al., 2002, Science
Mika Rubinov, UNSW, 2007 (last modified July 2008)
"""
if weighted:
m = bct.to_gslm(cmatrix.tolist())
str = bct.motif3struct_wei(m)
strnp = bct.from_gsl(str)
bct.gsl_free(m)
bct.gsl_free(str)
return np.asarray(strnp)
else:
m = bct.to_gslm(cmatrix.tolist())
str = bct.motif3struct_bin(m)
strnp = bct.from_gsl(str)
bct.gsl_free(m)
bct.gsl_free(str)
return np.asarray(strnp)
def motif3struct_bin(*args): return _bct.motif3struct_bin(*args)
def motif3struct_bin(*args):
return _bct.motif3struct_bin(*args)
def motif3struct_bin(*args): """motif3struct_bin(gsl_matrix A) -> gsl_vector""" return _bct.motif3struct_bin(*args)
def motif3struct_bin(*args):
"""motif3struct_bin(gsl_matrix A) -> gsl_vector"""
return _bct.motif3struct_bin(*args)