Description Usage Arguments Details Value Author(s) References Examples
EM algorithm for PPCA model.
1 |
q |
Number of PCs |
Yc |
Centered and scaled data |
tYc |
Transposed centered and scaled data |
S |
Sample covariance |
tmp |
Eigen decomposion |
tp |
Number of dimensions from eigen |
p |
Number of features |
Ip |
Identity matrix of p by p |
Np |
Some constant; n by p |
Nvp |
Some constant n by v by p |
C2p |
Some constant for the prior of the error variance |
picon |
Some constant for normal density computation |
IQ |
Identity matrices for different q values |
penalty |
penalty term for BIC |
eps |
Smallest value for convergence assessment |
repV |
Vector for maximum number of EM iteration in a vector |
V |
Maximum number of EM iterations. |
EM algorithm for PPCA model.
EM algorithm for PPCA model.
Nyamundanda, G., Poudel, P., Patil, Y. and Sadanandam, A.
Nyamundanda, G., Poudel, P., Patil, Y. and Sadanandam, A., 2017. A novel and robust statistical method to diagnose and correct batch effects in genomic data.
1 2 3 | ##---- Should be DIRECTLY executable !! ----
##-- ==> Define data, use random,
##-- or do help(data=index) for the standard data sets.
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