jEM: EM algorithm for PPCCA model jackkniifing.

Description Usage Arguments Details Value Author(s) References Examples

View source: R/jEM.R

Description

EM algorithm for PPCCA model jackkniifing.

Usage

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jEM(n, Y, idx, nj, p, Covars, Alphaopt, Wopt, Sigopt, Iq, repV, eps, Np, Nvp, C2p, Ip, picon, V)

Arguments

n

Number of samples

Y

Expression data

idx

Identify samples

nj

Number of jackknifing samples

p

Number of features

Covars

Covariates

Alphaopt

Regression coefficients

Wopt

Loadings

Sigopt

Error variance

Iq

Identity matrix q by q

repV

Vector for maximum number of EM iteration in a vector

eps

Smallest value for convergence assessment

Np

Some constant; n by p

Nvp

Some constant n by v by p

C2p

Some constant for the prior of the error variance

Ip

Identity matrix of p by p

picon

Some constant for normal density computation

V

Maximum number of EM iterations.

Details

EM algorithm for PPCCA model jackkniifing.

Value

EM algorithm for PPCCA model jackkniifing.

Author(s)

Nyamundanda, G., Poudel, P., Patil, Y. and Sadanandam, A.

References

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.

Examples

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##---- Should be DIRECTLY executable !! ----
##-- ==>  Define data, use random,
##--	or do  help(data=index)  for the standard data sets.

syspremed/exploBATCH documentation built on May 23, 2019, 9:34 a.m.