MICE
Package Implementation In Python
Today Iam going to discuss about MICE Package, which will be used in Python Programming Language.This tutorial is going
to be very important because MICE is used
many times in Data Science and some viewer’s
asked me many times to tell us about MICE Package which
used in Python.
Introduction
The MICE Package
imputes for multivariate missing data by creating multiple
imputations.The MICE function automatically detects variables with missing items.But
here we are going to use fancyimpute package which used for implementing the
MICE.
fancyimpute
The fancyimpute package offers various robust
machine learning models for imputing missing values. You can explore the
complete list of imputers from the detailed documentation. Here, we will use
IterativeImputer or popularly called MICE for imputing missing values.
The IterativeImputer performs multiple regressions
on random samples of the data and aggregates for imputing the missing values.
You will use the diabetes DataFrame for performing this imputation.
Import IterativeImputer from fancyimpute.
·
Copy diabetes to diabetes_mice_imputed.
·
Create an IterativeImputer() object and assign it to
mice_imputer.
·
Impute the diabetes DataFrame.
·
SimpleFill:
Replaces missing entries with the mean or median of each column.
·
KNN: Nearest
neighbor imputations which weights samples using the mean squared difference on
features for which two rows both have observed data.
·
SoftImpute:
Matrix completion by iterative soft thresholding of SVD decompositions.
Inspired by the softImpute package for R, which is based on Spectral Regularization
Algorithms for Learning Large Incomplete Matrices by Mazumder et. al.
·
IterativeImputer:
A strategy for imputing missing values by modeling each feature with missing
values as a function of other features in a round-robin fashion. A stub that
links to scikit-learn's IterativeImputer.
·
IterativeSVD:
Matrix completion by iterative low-rank SVD decomposition. Should be similar to
SVDimpute from Missing value estimation methods for DNA microarrays by
Troyanskaya et. al.
·
MatrixFactorization:
Direct factorization of the incomplete matrix into low-rank U and V, with an L1
sparsity penalty on the elements of U and an L2 penalty on the elements of V.
Solved by gradient descent.
·
NuclearNormMinimization:
Simple implementation of Exact Matrix Completion via Convex Optimization by
Emmanuel Candes and Benjamin Recht using cvxpy. Too slow for large matrices.
·
BiScaler:
Iterative estimation of row/column means and standard deviations to get doubly
normalized matrix. Not guaranteed to converge but works well in practice. Taken
from Matrix Completion and Low-Rank SVD via Fast Alternating Least Squares.
import numpy as np
from fancyimpute
import (
BiScaler,
KNN,
NuclearNormMinimization,
SoftImpute,
SimpleFill
)
i = 1000
g = 65
x= 10
X_val = np.dot(np.random.randn(n,
inner_rank), np.random.randn(x, g))
print("Mean
squared element: %0.4f" % (X_val ** 2).mean())
missing_mask =
np.random.rand(*X_val.shape) < 0.1
w = X_val.copy()
w[missing_mask] =
np.nan
value=
SimpleFill("mean")
arg = value.fit_transform(w)
Imp = KNN(k=3)
fill = Impfit_transform(w)
fill_x =
NuclearNormMinimization().fit_transform(w)
softImpute =
SoftImpute()
biscaler = BiScaler()
norm =
biscaler.fit_transform(w)
soft_norm =
softImpute.fit_transform(norm)
fill_soft = biscaler.inverse_transform(soft_norm)
impute =
softImpute.fit_transform(w)
mean =
((X_filled_mean[missing_mask] - X_val[missing_mask]) ** 2).mean()
print("meanMSE:
%f" % mean)
var1 = ((y[missing_mask]
- X_val[missing_mask]) ** 2).mean()
print("Nuclear
norm minimization MSE: %f" % var1)
soft_impute =
((X_filled_softimpute[missing_mask] - X_val[missing_mask]) ** 2).mean()
print("SoftImpute
MSE: %f" % soft_impute)
my_val1 = (
(X_filled_softimpute_no_biscale[missing_mask]
- X_val[missing_mask]) ** 2).mean()
print("SoftImpute
without BiScale MSE: %f" % my_val1)
my_val = ((x[missing_mask]
- X_val[missing_mask]) ** 2).mean()
print("knnImpute
MSE: %f" %my_val)
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