I have measured data on a three dimensional grid, e.g. f(x, y, t)
. I want to interpolate and smooth this data in the direction of t
with splines.
C
The best thing I can think of is to do a minimization with a constraint with scipy.optimize.minimize
. It is pretty easy to take the derivative of a spline, so the constraint is simply. I would use a regular spline fit (UnivariateSpline
) to get the knots (t
), and hold the knots fixed (and degree k
, of course), and vary the coefficients c
. Maybe there is a way to vary the knot locations as well but I will leave that to you.
import numpy as np
from scipy.interpolate import UnivariateSpline, splev, splrep
from scipy.optimize import minimize
def guess(x, y, k, s, w=None):
"""Do an ordinary spline fit to provide knots"""
return splrep(x, y, w, k=k, s=s)
def err(c, x, y, t, k, w=None):
"""The error function to minimize"""
diff = y - splev(x, (t, c, k))
if w is None:
diff = np.einsum('...i,...i', diff, diff)
else:
diff = np.dot(diff*diff, w)
return np.abs(diff)
def spline_neumann(x, y, k=3, s=0, w=None):
t, c0, k = guess(x, y, k, s, w=w)
x0 = x[0] # point at which zero slope is required
con = {'type': 'eq',
'fun': lambda c: splev(x0, (t, c, k), der=1),
#'jac': lambda c: splev(x0, (t, c, k), der=2) # doesn't help, dunno why
}
opt = minimize(err, c0, (x, y, t, k, w), constraints=con)
copt = opt.x
return UnivariateSpline._from_tck((t, copt, k))
And then we generate some fake data that should have zero initial slope and test it:
import matplotlib.pyplot as plt
n = 10
x = np.linspace(0, 2*np.pi, n)
y0 = np.cos(x) # zero initial slope
std = 0.5
noise = np.random.normal(0, std, len(x))
y = y0 + noise
k = 3
sp0 = UnivariateSpline(x, y, k=k, s=n*std)
sp = spline_neumann(x, y, k, s=n*std)
plt.figure()
X = np.linspace(x.min(), x.max(), len(x)*10)
plt.plot(X, sp0(X), '-r', lw=1, label='guess')
plt.plot(X, sp(X), '-r', lw=2, label='spline')
plt.plot(X, sp.derivative()(X), '-g', label='slope')
plt.plot(x, y, 'ok', label='data')
plt.legend(loc='best')
plt.show()