Files in zinbwave

Zero-Inflated Negative Binomial Model for RNA-Seq Data

R/solveRidgeRegression.R R/zinb_fit.R R/AllGenerics.R R/nb_Optimize.R R/helper_methods.R R/detest.R R/orthogonalizeTraceNorm.R R/AllClasses.R R/zinbsurf.R R/zinbwave.R R/nb_Initialize.R vignettes/intro.Rmd man/zinbInitialize.Rd man/zinbBIC.Rd man/getX_pi.Rd man/nSamples.Rd man/getPi.Rd man/loglik.Rd man/zinbsurf.Rd man/zinbModel.Rd man/getBeta_pi.Rd man/getPhi.Rd man/independentFiltering.Rd man/getEpsilon_W.Rd man/getZeta.Rd man/zinbAIC.Rd man/ZinbModel-class.Rd man/zinb.regression.parseModel.Rd man/toydata.Rd man/getX_mu.Rd man/pvalueAdjustment.Rd man/zinbSim.Rd man/imputeZeros.Rd man/getMu.Rd man/getW.Rd man/zinbOptimizeDispersion.Rd man/getAlpha_pi.Rd man/getLogMu.Rd man/getEpsilon_gamma_pi.Rd man/zinb.loglik.regression.gradient.Rd man/orthogonalizeTraceNorm.Rd man/getEpsilon_beta_mu.Rd man/solveRidgeRegression.Rd man/zinb.loglik.matrix.Rd man/zinbwave.Rd man/nParams.Rd man/computeDevianceResiduals.Rd man/zinb.loglik.regression.Rd man/zinb.loglik.Rd man/getEpsilon_alpha.Rd man/getGamma_pi.Rd man/glmWeightedF.Rd man/computeObservationalWeights.Rd man/getTheta.Rd man/zinbOptimize.Rd man/getBeta_mu.Rd man/zinb.loglik.dispersion.gradient.Rd man/getGamma_mu.Rd man/getAlpha_mu.Rd man/nFeatures.Rd man/getEpsilon_beta_pi.Rd man/getV_mu.Rd man/zinbFit.Rd man/getEpsilon_zeta.Rd man/getLogitPi.Rd man/nFactors.Rd man/getV_pi.Rd man/zinb.loglik.dispersion.Rd man/penalty.Rd man/getEpsilon_gamma_mu.Rd tests/testthat.R tests/testthat/test_initialize.R tests/testthat/test_value.R tests/testthat/test_de.R tests/testthat/test_zinbwave_nb.R tests/testthat/test_initialize_nb.R tests/testthat/test_design.R tests/testthat/test_zinbsurf.R tests/testthat/test_integer.R tests/testthat/test_accessors.R tests/testthat/test_zinbwave.R inst/doc/intro.R inst/doc/intro.Rmd