利用python做数据拟合详情

目录

• 1、例子：拟合一种函数Func，此处为一个指数函数。
• 2. 例子：拟合一个Gaussian函数
• 3. 用一个lmfit的包来实现2中的Gaussian函数拟合

1、例子：拟合一种函数Func，此处为一个指数函数。

出处：

SciPy v1.1.0 Reference Guide

#Header
import numpy as np
import matplotlib.pyplot as plt
from scipy.optimize import curve_fit

#Define a function(here a exponential function is used)
def func(x, a, b, c):
 return a * np.exp(-b * x) + c

#Create the data to be fit with some noise
xdata = np.linspace(0, 4, 50)
y = func(xdata, 2.5, 1.3, 0.5)
np.random.seed(1729)
y_noise = 0.2 * np.random.normal(size=xdata.size)
ydata = y + y_noise
plt.plot(xdata, ydata, \'bo\', label=\'data\')

#Fit for the parameters a, b, c of the function func:
popt, pcov = curve_fit(func, xdata, ydata)
popt #output: array([ 2.55423706, 1.35190947, 0.47450618])
plt.plot(xdata, func(xdata, *popt), \'r-\',
 label=\'fit: a=%5.3f, b=%5.3f, c=%5.3f\' % tuple(popt))

#In the case of parameters a,b,c need be constrainted
#Constrain the optimization to the region of 
#0 <= a <= 3, 0 <= b <= 1 and 0 <= c <= 0.5
popt, pcov = curve_fit(func, xdata, ydata, bounds=(0, [3., 1., 0.5]))
popt #output: array([ 2.43708906, 1. , 0.35015434])
plt.plot(xdata, func(xdata, *popt), \'g--\',
 label=\'fit: a=%5.3f, b=%5.3f, c=%5.3f\' % tuple(popt))

#Labels
plt.title(\"Exponential Function Fitting\")
plt.xlabel(\'x coordinate\')
plt.ylabel(\'y coordinate\')
plt.legend()
leg = plt.legend()  # remove the frame of Legend, personal choice
leg.get_frame().set_linewidth(0.0) # remove the frame of Legend, personal choice
#leg.get_frame().set_edgecolor(\'b\') # change the color of Legend frame
#plt.show()

#Export figure
#plt.savefig(\'fit1.eps\', format=\'eps\', dpi=1000)
plt.savefig(\'fit1.pdf\', format=\'pdf\', dpi=1000, figsize=(8, 6), facecolor=\'w\', edgecolor=\'k\')
plt.savefig(\'fit1.jpg\', format=\'jpg\', dpi=1000, figsize=(8, 6), facecolor=\'w\', edgecolor=\'k\')

上面一段代码可以直接在spyder中运行。得到的JPG导出图如下：

2. 例子：拟合一个Gaussian函数

出处：LMFIT: Non-Linear Least-Squares Minimization and Curve-Fitting for Python

#Header
import numpy as np
import matplotlib.pyplot as plt
from numpy import exp, linspace, random
from scipy.optimize import curve_fit

#Define the Gaussian function
def gaussian(x, amp, cen, wid):
 return amp * exp(-(x-cen)**2 / wid)

#Create the data to be fitted
x = linspace(-10, 10, 101)
y = gaussian(x, 2.33, 0.21, 1.51) + random.normal(0, 0.2, len(x))
np.savetxt (\'data.dat\',[x,y])  #[x,y] is is saved as a matrix of 2 lines

#Set the initial(init) values of parameters need to optimize(best)
init_vals = [1, 0, 1] # for [amp, cen, wid]

#Define the optimized values of parameters
best_vals, covar = curve_fit(gaussian, x, y, p0=init_vals)
print(best_vals) # output: array [2.27317256  0.20682276  1.64512305]

#Plot the curve with initial parameters and optimized parameters
y1 = gaussian(x, *best_vals) #best_vals, \'*\'is used to read-out the values in the array
y2 = gaussian(x, *init_vals) #init_vals
plt.plot(x, y, \'bo\',label=\'raw data\')
plt.plot(x, y1, \'r-\',label=\'best_vals\')
plt.plot(x, y2, \'k--\',label=\'init_vals\')
#plt.show()

#Labels
plt.title(\"Gaussian Function Fitting\")
plt.xlabel(\'x coordinate\')
plt.ylabel(\'y coordinate\')
plt.legend()
leg = plt.legend()  # remove the frame of Legend, personal choice
leg.get_frame().set_linewidth(0.0) # remove the frame of Legend, personal choice
#leg.get_frame().set_edgecolor(\'b\') # change the color of Legend frame
#plt.show()

#Export figure
#plt.savefig(\'fit2.eps\', format=\'eps\', dpi=1000)
plt.savefig(\'fit2.pdf\', format=\'pdf\', dpi=1000, figsize=(8, 6), facecolor=\'w\', edgecolor=\'k\')
plt.savefig(\'fit2.jpg\', format=\'jpg\', dpi=1000, figsize=(8, 6), facecolor=\'w\', edgecolor=\'k\')

上面一段代码可以直接在spyder中运行。得到的JPG导出图如下：

3. 用一个lmfit的包来实现2中的Gaussian函数拟合

需要下载lmfit这个包，下载地址：

https://pypi.org/project/lmfit/#files

下载下来的文件是.tar.gz格式，在MacOS及Linux命令行中解压，指令：

将其中的lmfit文件夹复制到当前project目录下。

上述例子2中生成了data.dat，用来作为接下来的方法中的原始数据。

 出处：

Modeling Data and Curve Fitting

#Header
import numpy as np
import matplotlib.pyplot as plt
from numpy import exp, loadtxt, pi, sqrt
from lmfit import Model

#Import the data and define x, y and the function
data = loadtxt(\'data.dat\')
x = data[0, :]
y = data[1, :]
def gaussian1(x, amp, cen, wid):
 return (amp / (sqrt(2*pi) * wid)) * exp(-(x-cen)**2 / (2*wid**2))

#Fitting
gmodel = Model(gaussian1)
result = gmodel.fit(y, x=x, amp=5, cen=5, wid=1) #Fit from initial values (5,5,1)
print(result.fit_report())

#Plot
plt.plot(x, y, \'bo\',label=\'raw data\')
plt.plot(x, result.init_fit, \'k--\',label=\'init_fit\')
plt.plot(x, result.best_fit, \'r-\',label=\'best_fit\')
#plt.show()


#Labels
plt.title(\"Gaussian Function Fitting\")
plt.xlabel(\'x coordinate\')
plt.ylabel(\'y coordinate\')
plt.legend()
leg = plt.legend()  # remove the frame of Legend, personal choice
leg.get_frame().set_linewidth(0.0) # remove the frame of Legend, personal choice
#leg.get_frame().set_edgecolor(\'b\') # change the color of Legend frame
#plt.show()

#Export figure
#plt.savefig(\'fit3.eps\', format=\'eps\', dpi=1000)
plt.savefig(\'fit3.pdf\', format=\'pdf\', dpi=1000, figsize=(8, 6), facecolor=\'w\', edgecolor=\'k\')
plt.savefig(\'fit3.jpg\', format=\'jpg\', dpi=1000, figsize=(8, 6), facecolor=\'w\', edgecolor=\'k\')

上面这一段代码需要按指示下载lmfit包，并且读取例子2中生成的data.dat。

得到的JPG导出图如下：