def motif3funct(cmatrix, weighted):
""" Counts occurrences of three-node functional 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 functional motif metrics.
References: Onnela et al. 2005, Phys Rev E 71:065103;
Sporns and Kotter, PLoS Biology 2004, 2:e369
Mika Rubinov, UNSW, 2007 (last modified July 2008)
weighted == False:
F : binary motif count per vertex F
Counts functional motif occurence
Reference: Sporns and Kotter, PLoS Biology 2004, 2:e369
Mika Rubinov, UNSW, 2008
"""
if weighted:
m = bct.to_gslm(cmatrix.tolist())
str = bct.motif3funct_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.motif3funct_bin(m)
strnp = bct.from_gsl(str)
bct.gsl_free(m)
bct.gsl_free(str)
return np.asarray(strnp)
def motif3funct(cmatrix, weighted):
""" Counts occurrences of three-node functional 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 functional motif metrics.
References: Onnela et al. 2005, Phys Rev E 71:065103;
Sporns and Kotter, PLoS Biology 2004, 2:e369
Mika Rubinov, UNSW, 2007 (last modified July 2008)
weighted == False:
F : binary motif count per vertex F
Counts functional motif occurence
Reference: Sporns and Kotter, PLoS Biology 2004, 2:e369
Mika Rubinov, UNSW, 2008
"""
if weighted:
m = bct.to_gslm(cmatrix.tolist())
str = bct.motif3funct_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.motif3funct_bin(m)
strnp = bct.from_gsl(str)
bct.gsl_free(m)
bct.gsl_free(str)
return np.asarray(strnp)
def motif3funct_bin(*args): return _bct.motif3funct_bin(*args)
def motif3funct_bin(*args):
return _bct.motif3funct_bin(*args)
def motif3funct_bin(*args): """motif3funct_bin(gsl_matrix W) -> gsl_vector""" return _bct.motif3funct_bin(*args)
def motif3funct_bin(*args):
"""motif3funct_bin(gsl_matrix W) -> gsl_vector"""
return _bct.motif3funct_bin(*args)