python连接高斯数据库,Python加载数据并进行多高斯拟合

I've been looking for a way to do multiple Gaussian fitting to my data. Most of the examples I've found so far use a normal distribution to make random numbers. But I am interested in looking at the plot of my data and checking if there are 1-3 peaks.

I can do this for one peak, but I don't know how to do it for more.

I have tried using lmfit, and of course scipy, but with no nice results.

Thanks for any help!

解决方案

Simply make parameterized model functions of the sum of single Gaussians. Choose a good value for your initial guess (this is a really critical step) and then have scipy.optimize tweak those numbers a bit.

Here's how you might do it:

import numpy as np

import matplotlib.pyplot as plt

from scipy import optimize

data = np.genfromtxt('data.txt')

def gaussian(x, height, center, width, offset):

return height*np.exp(-(x - center)**2/(2*width**2)) + offset

def three_gaussians(x, h1, c1, w1, h2, c2, w2, h3, c3, w3, offset):

return (gaussian(x, h1, c1, w1, offset=0) +

gaussian(x, h2, c2, w2, offset=0) +

gaussian(x, h3, c3, w3, offset=0) + offset)

def two_gaussians(x, h1, c1, w1, h2, c2, w2, offset):

return three_gaussians(x, h1, c1, w1, h2, c2, w2, 0,0,1, offset)

errfunc3 = lambda p, x, y: (three_gaussians(x, *p) - y)**2

errfunc2 = lambda p, x, y: (two_gaussians(x, *p) - y)**2

guess3 = [0.49, 0.55, 0.01, 0.6, 0.61, 0.01, 1, 0.64, 0.01, 0] # I guess there are 3 peaks, 2 are clear, but between them there seems to be another one, based on the change in slope smoothness there

guess2 = [0.49, 0.55, 0.01, 1, 0.64, 0.01, 0] # I removed the peak I'm not too sure about

optim3, success = optimize.leastsq(errfunc3, guess3[:], args=(data[:,0], data[:,1]))

optim2, success = optimize.leastsq(errfunc2, guess2[:], args=(data[:,0], data[:,1]))

optim3

plt.plot(data[:,0], data[:,1], lw=5, c='g', label='measurement')

plt.plot(data[:,0], three_gaussians(data[:,0], *optim3),

lw=3, c='b', label='fit of 3 Gaussians')

plt.plot(data[:,0], two_gaussians(data[:,0], *optim2),

lw=1, c='r', ls='--', label='fit of 2 Gaussians')

plt.legend(loc='best')

plt.savefig('result.png')

As you can see, there is almost no difference between these two fits (visually). So you can't know for sure if there were 3 Gaussians present in the source or only 2. However, if you had to make a guess, then check for the smallest residual:

err3 = np.sqrt(errfunc3(optim3, data[:,0], data[:,1])).sum()

err2 = np.sqrt(errfunc2(optim2, data[:,0], data[:,1])).sum()

print('Residual error when fitting 3 Gaussians: {}\n'

'Residual error when fitting 2 Gaussians: {}'.format(err3, err2))

# Residual error when fitting 3 Gaussians: 3.52000910965

# Residual error when fitting 2 Gaussians: 3.82054499044

In this case, 3 Gaussians gives a better result, but I also made my initial guess fairly accurate.