genpca | R Documentation |
The function genpca
computes a generalized Principal Component Analysis (PCA).
It calculates the principal components, the coordinates of the variables and
in these principals components axes and the inertia of these principal components.
genpca(data, w = rep(1/nrow(data), length = nrow(data)),
m = diag(ncol(data)), center = NULL, reduc = TRUE)
data |
matrix |
w |
vector of size n of weight (by default : |
m |
matrix |
center |
boolean. if TRUE, centered PCA (by default : center=TRUE) |
reduc |
boolean. if TRUE, reduced PCA (by default : reduce=TRUE) |
Let
W=diag(w)
x=data=(x_1',...,x_n')'
with
x_i=(x_i^1,...,x_i^p)
Let
1_n=(1,...,1)'
with n rows and :
1_p=(1,...,1)'
with p rows. Normalization of weight :
w_i=\frac{w_i}{\sum_iw_i}
Vector of means :
\bar{x}=(\bar{x^1},...,\bar{x^p})'
with:
\bar{x^j}=\sum_iw_ix_i^j
If center=True,
x_c=x-1_n\bar{x}'
Standart deviation :
(\sigma^j)^2=\sum_iw_i(x_i^j)^2-(\bar{x^j})^2
\Sigma=diag((\sigma^1)^2,...,(\sigma^p)^2)'
If reduc=True :
x_{cr}=x_c \times \Sigma^{-1/2}
Variance-Covariance matrix:
C=x_{cr}'Wx_{cr}
Cholesky decomposition : M=LL'
where M=m
Let
C_l=LCL'
Let U and D as :
C_lU=UD
with D=diag(\lambda_1,...,\lambda_p)
Let
V=L'U
Then :
Coordinates of individuals in the principals components basis :
CC=x_{cr}V
Coordinates of variables in principals components :
VC=CVD^{-1/2}
Inertia :
I=D1_p
Returns ‘inertia’ vector of size p with percent of inertia of each component (corresponding to I),
‘casecoord’ matrix n \times p
(corresponding to matrix CC),
‘varcoord’ matrix p \times n
(corresponding to matrix VC0).
Thomas-Agnan C., Aragon Y., Ruiz-Gazen A., Laurent T., Robidou L.
Thibault Laurent, Anne Ruiz-Gazen, Christine Thomas-Agnan (2012), GeoXp: An R Package for Exploratory Spatial Data Analysis. Journal of Statistical Software, 47(2), 1-23.
Caussinus H., Fekri M., Hakam S., Ruiz-Gazen A. (2003) , A monitoring display of Multivariate Outliers, Computational Statistics and Data Analysis, vol. 44, 1-2, 237-252.
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