GMCM: Fast Estimation of Gaussian Mixture Copula Models

Unsupervised Clustering and Meta-analysis using Gaussian Mixture Copula Models.

Author
Anders Ellern Bilgrau, Martin Boegsted, Poul Svante Eriksen
Date of publication
2016-03-30 00:56:30
Maintainer
Anders Ellern Bilgrau <anders.ellern.bilgrau@gmail.com>
License
GPL (>= 2)
Version
1.2.3
URLs

View on CRAN

Man pages

choose.theta
Heuristically chosen starting value of theta
colSds
Row and column standard deviations
cummean
Cumulative mean values
dgmcm.loglik
Probability, density, and likelihood functions of the...
dmvnormal
Multivariate Gaussian density and simulation
EMAlgorithm
EM algorithm for Gaussian mixture models
EStep
Steps of the EM algorithm for a Gaussian Mixture model
fit.full.GMCM
Unsupervised clustering using a general GMCM
fit.meta.GMCM
Reproducibility/meta analysis using GMCMs
freshVsFrozen
Reproducibility between Fresh and Frozen B-cell subtypes
full2meta
Convert between parameter formats
get.IDR
Posterior class probabilities, local, and adjusted IDRs.
GMCM-package
Fast optimization of Gaussian Mixture Copula Models
is.theta
Check if parameters are valid
logit
Logit and inverse logit transforms
PseudoEMAlgorithm
EM-like algorithm for the GMCM
rho.transform
Transformation of the correlation to real line and its...
rtheta
Get random parameters for the Gaussian mixture (copula) model
SimulateGMCMData
Simulation from Gaussian mixture (copula) models
tt
Reparametrization of GMCM parameters
u133VsExon
Reproducibility between U133 plus 2 and Exon microarrays
Uhat
Fast ranking function

Files in this package

GMCM
GMCM/inst
GMCM/inst/CITATION
GMCM/inst/NEWS.Rd
GMCM/inst/doc
GMCM/inst/doc/GMCM-JStatSoft.pdf
GMCM/inst/doc/GMCM-JStatSoft.R
GMCM/inst/doc/GMCM-JStatSoft.Rnw
GMCM/tests
GMCM/tests/testthat
GMCM/tests/testthat/test-pgmm.marginal.R
GMCM/tests/testthat/test-EMAlgorithm.R
GMCM/tests/testthat/test-tt-inv.tt.R
GMCM/tests/testthat/test-full2meta-meta2full.R
GMCM/tests/testthat/test-meta.gmcm.loglik.R
GMCM/tests/testthat/test-cummean.R
GMCM/tests/testthat/test-qgmm.marginal.R
GMCM/tests/testthat/test-dgmm.loglik.R
GMCM/tests/testthat/test-EStep.R
GMCM/tests/testthat/test-dgmm.loglik.marginal.R
GMCM/tests/testthat/test-choose.theta.R
GMCM/tests/testthat/test-logit-inv.logit.R
GMCM/tests/testthat/test-get.idr-get.prob-get.IDR2.R
GMCM/tests/testthat/test-is.theta.R
GMCM/tests/testthat/test-MStep.R
GMCM/tests/testthat/test-PseudoEMAlgorithm.R
GMCM/tests/testthat/test-colSds-rowSds.R
GMCM/tests/testthat/test-SimulateGMCMData-SimulateGMMData.R
GMCM/tests/testthat/test-check.R
GMCM/tests/testthat/test-rho.transform-inv.rho.transform.R
GMCM/tests/testthat/test-dgmcm.loglik.R
GMCM/tests/test-all.R
GMCM/src
GMCM/src/Makevars
GMCM/src/GMCM.cpp
GMCM/src/Makevars.win
GMCM/src/RcppExports.cpp
GMCM/NAMESPACE
GMCM/data
GMCM/data/u133VsExon.RData
GMCM/data/datalist
GMCM/data/freshVsFrozen.RData
GMCM/R
GMCM/R/get.prob.R
GMCM/R/MStep.R
GMCM/R/fit.full.GMCM.R
GMCM/R/colSds.R
GMCM/R/logit.R
GMCM/R/dgmm.loglik.R
GMCM/R/SimulateGMCMData.R
GMCM/R/meta.gmcm.loglik.R
GMCM/R/cummean.R
GMCM/R/get.IDR2.R
GMCM/R/fit.meta.GMCM.R
GMCM/R/SimulateGMMData.R
GMCM/R/choose.theta.R
GMCM/R/rho.transform.R
GMCM/R/GMCM-package.R
GMCM/R/meta2full.R
GMCM/R/full2meta.R
GMCM/R/qgmm.marginal.R
GMCM/R/EMAlgortihm.R
GMCM/R/RcppExports.R
GMCM/R/EStep.R
GMCM/R/is.theta.R
GMCM/R/inv.logit.R
GMCM/R/pgmm.marginal.R
GMCM/R/theta2vector.R
GMCM/R/dgmcm.loglik.R
GMCM/R/inv.tt.R
GMCM/R/dgmm.loglik.marginal.R
GMCM/R/PseudoEMAlgorithm.R
GMCM/R/get.idr.R
GMCM/R/vector2theta.R
GMCM/R/tt.R
GMCM/R/inv.rho.transform.R
GMCM/R/Uhat.R
GMCM/R/rowSds.R
GMCM/R/rtheta.R
GMCM/vignettes
GMCM/vignettes/saved.RData
GMCM/vignettes/GMCM-Standalone.R
GMCM/vignettes/GMCM-JStatSoft.Rnw
GMCM/vignettes/References.bib
GMCM/README.md
GMCM/MD5
GMCM/build
GMCM/build/vignette.rds
GMCM/DESCRIPTION
GMCM/man
GMCM/man/rho.transform.Rd
GMCM/man/full2meta.Rd
GMCM/man/dgmcm.loglik.Rd
GMCM/man/GMCM-package.Rd
GMCM/man/tt.Rd
GMCM/man/rtheta.Rd
GMCM/man/colSds.Rd
GMCM/man/fit.meta.GMCM.Rd
GMCM/man/EMAlgorithm.Rd
GMCM/man/cummean.Rd
GMCM/man/choose.theta.Rd
GMCM/man/Uhat.Rd
GMCM/man/get.IDR.Rd
GMCM/man/logit.Rd
GMCM/man/fit.full.GMCM.Rd
GMCM/man/freshVsFrozen.Rd
GMCM/man/SimulateGMCMData.Rd
GMCM/man/is.theta.Rd
GMCM/man/PseudoEMAlgorithm.Rd
GMCM/man/EStep.Rd
GMCM/man/dmvnormal.Rd
GMCM/man/u133VsExon.Rd