API for zinbwave
Zero-Inflated Negative Binomial Model for RNA-Seq Data

Global functions
.is_wholenumber	Source code
ZinbModel	Man page
ZinbModel-class	Man page
computeDevianceResiduals	Man page Source code
computeObservationalWeights	Man page Source code
getAlpha_mu	Man page
getAlpha_mu,ZinbModel-method	Man page
getAlpha_pi	Man page
getAlpha_pi,ZinbModel-method	Man page
getBeta_mu	Man page
getBeta_mu,ZinbModel-method	Man page
getBeta_pi	Man page
getBeta_pi,ZinbModel-method	Man page
getEpsilon_W	Man page
getEpsilon_W,ZinbModel-method	Man page
getEpsilon_alpha	Man page
getEpsilon_alpha,ZinbModel-method	Man page
getEpsilon_beta_mu	Man page
getEpsilon_beta_mu,ZinbModel-method	Man page
getEpsilon_beta_pi	Man page
getEpsilon_beta_pi,ZinbModel-method	Man page
getEpsilon_gamma_mu	Man page
getEpsilon_gamma_mu,ZinbModel-method	Man page
getEpsilon_gamma_pi	Man page
getEpsilon_gamma_pi,ZinbModel-method	Man page
getEpsilon_zeta	Man page
getEpsilon_zeta,ZinbModel-method	Man page
getGamma_mu	Man page
getGamma_mu,ZinbModel-method	Man page
getGamma_pi	Man page
getGamma_pi,ZinbModel-method	Man page
getLogMu	Man page
getLogMu,ZinbModel-method	Man page
getLogitPi	Man page
getLogitPi,ZinbModel-method	Man page
getMu	Man page
getMu,ZinbModel-method	Man page
getPhi	Man page
getPhi,ZinbModel-method	Man page
getPi	Man page
getPi,ZinbModel-method	Man page
getTheta	Man page
getTheta,ZinbModel-method	Man page
getV_mu	Man page
getV_mu,ZinbModel-method	Man page
getV_pi	Man page
getV_pi,ZinbModel-method	Man page
getW	Man page
getW,ZinbModel-method	Man page
getX_mu	Man page
getX_mu,ZinbModel-method	Man page
getX_pi	Man page
getX_pi,ZinbModel-method	Man page
getZeta	Man page
getZeta,ZinbModel-method	Man page
glmWeightedF	Man page Source code
imputeZeros	Man page Source code
independentFiltering	Man page Source code
loglik	Man page
loglik,ZinbModel,matrix-method	Man page
nFactors	Man page
nFactors,ZinbModel-method	Man page
nFeatures	Man page
nFeatures,ZinbModel-method	Man page
nParams	Man page
nParams,ZinbModel-method	Man page
nSamples	Man page
nSamples,ZinbModel-method	Man page
nb.loglik	Source code
nb.loglik.dispersion	Source code
nb.loglik.dispersion.gradient	Source code
nb.loglik.regression	Source code
nb.loglik.regression.gradient	Source code
nb.regression.parseModel	Source code
nbInitialize	Source code
nbOptimize	Source code
nbOptimizeDispersion	Source code
optimleft_fun	Source code
optimleft_fun_nb	Source code
optimright_fun	Source code
optimright_fun_nb	Source code
orthogonalizeTraceNorm	Man page Source code
penalty	Man page
penalty,ZinbModel-method	Man page
pvalueAdjustment	Man page Source code
show,ZinbModel-method	Man page
solveRidgeRegression	Man page Source code
toydata	Man page
zinb.loglik	Man page Source code
zinb.loglik.dispersion	Man page Source code
zinb.loglik.dispersion.gradient	Man page Source code
zinb.loglik.matrix	Man page Source code
zinb.loglik.regression	Man page Source code
zinb.loglik.regression.gradient	Man page Source code
zinb.regression.parseModel	Man page Source code
zinbAIC	Man page
zinbAIC,ZinbModel,matrix-method	Man page
zinbBIC	Man page
zinbBIC,ZinbModel,matrix-method	Man page
zinbFit	Man page
zinbFit,SummarizedExperiment-method	Man page
zinbFit,dgCMatrix-method	Man page
zinbFit,matrix-method	Man page
zinbInitialize	Man page Source code
zinbModel	Man page Source code
zinbOptimize	Man page Source code
zinbOptimizeDispersion	Man page Source code
zinbSim	Man page
zinbSim,ZinbModel-method	Man page
zinbsurf	Man page
zinbsurf,SummarizedExperiment-method	Man page
zinbwave	Man page
zinbwave,SummarizedExperiment-method	Man page