Description Usage Arguments Value Author(s) References See Also
Utility function performing EM algorithm updates for penLik.EMNewton
1 2 3 4 |
starts |
A numeric vector of starting values, in |
nLogLik.pen |
A function computing negative penalized log likelihod |
optim.method |
One of |
H |
Design matrix |
tstat |
A numeric vector of t-statistics |
df |
A numeric scalar or vector of degrees of freedom |
dt0 |
A numeric vector of the central t-density evaluated at the t-statistics |
spar.Pen.mat |
smoothing parameter times the penalty matrix |
em.iter.max |
Maximum number of EM iterations |
em.beta.iter.max |
Maximum number of iterations in maximization step with respect to regression coefficients |
scale.conv |
A small numeric scalar specifying the convergence criterion for the scale parameter |
lfdr.conv |
A small numeric scalar specifying the convergence criterion for the local false discovery rates |
NPLL.conv |
A small numeric scalar specifying the convergence criterion for the negative penalized log likelihood |
debugging |
A logical scalar indicating whether debugging mode of the code should be run |
A numeric vector of updated parameter estimates. The scale factor is in the log(scale.fact-1)
parameterization.
Long Qu long.qu@wright.edu
Long Qu, Dan Nettleton, Jack Dekkers (2012) A hierarchical semiparametric model for incorporating inter-gene relationship information for analysis of genomic data. Biometrics, 68(4):1168-1177
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