Files in LineagePulse

Differential expression analysis and model fitting for single-cell RNA-seq data

README.md R/srcLineagePulse_runHypothesisTests.R R/srcLineagePulse_evalLogLik.R R/srcLineagePulse_initialiseDispModel.R R/srcLineagePulse_simulateDataSet.R R/srcLineagePulse_fitMeanDispersion.R R/srcLineagePulse_initialiseDropModel.R R/srcLineagePulse_sortGeneTrajectories.R R/main_LineagePulse.R R/srcLineagePulse_classLineagePulseObject.R R/srcLineagePulse_getFits.R R/srcLineagePulse_evalDropoutModel.R R/srcLineagePulse_evalImpulseModel.R R/srcLineagePulse_fitModel.R R/srcLineagePulse_fitDropout.R R/srcLineagePulse_initialiseMuModel.R R/srcLineagePulse_plotGene.R R/srcLineagePulse_initialiseImpulseParameters.R R/srcLineagePulse_fitWrapperLP.R R/srcLineagePulse_classUnions.R R/srcLineagePulse_processSCData.R R/srcLineagePulse_calcPostDrop.R R/srcLineagePulse_decompressParameters.R R/srcLineagePulse_calcNormConst.R vignettes/LineagePulse_Tutorial.Rmd man/plotCellDensity.Rd man/calcPostDrop_Vector.Rd man/LineagePulseObject-class.Rd man/testDropout.Rd man/getNormData.Rd man/decompressDispByGene.Rd man/decompressMeansByGene.Rd man/plotGene.Rd man/fitPi_SingleCell.Rd man/getPostDrop.Rd man/fitPi_ManyCells.Rd man/sortGeneTrajectories.Rd man/runDEAnalysis.Rd man/evalLogLikGene.Rd man/initialiseImpulseParameters.Rd man/fitLPModels.Rd man/fitMuDispGeneMM.Rd man/evalLogLikZINB.Rd man/evalDropoutModel.Rd man/initDispModel.Rd man/processSCData.Rd man/evalLogLikMuDispGeneFit.Rd man/evalLogLikPiZINB_SingleCell.Rd man/fitModel.Rd man/writeReport.Rd man/simulateContinuousDataSet.Rd man/names-LineagePulseObject-method.Rd man/evalLogLikMuDispGeneFit_comp.Rd man/evalLogLikZINB_comp.Rd man/sub-sub-LineagePulseObject-character-missing-method.Rd man/fitMuDispGeneImpulse.Rd man/calcPostDrop_Matrix.Rd man/initDropModel.Rd man/fitPi.Rd man/runLineagePulse.Rd man/evalLogLikPiZINB_ManyCells.Rd man/evalDropoutModel_comp.Rd man/decompressDropoutRateByCell.Rd man/initMuModel.Rd man/getFitsMean.Rd man/LPsetters.Rd man/cash-LineagePulseObject-method.Rd man/accessors.Rd man/getFitsDropout.Rd man/evalLogLikPiZINB_SingleCell_comp.Rd man/decompressDispByGeneMM.Rd man/getFitsDispersion.Rd man/calcNormConst.Rd man/fitMuDisp.Rd man/decompressMuByGeneMM.Rd man/evalLogLikMatrix.Rd man/evalImpulseModel.Rd man/evalLogLikNB_comp.Rd man/fitMuDispGene.Rd man/decompressDropoutRateByGene.Rd man/evalLogLikGeneMM.Rd man/evalLogLikPiZINB_ManyCells_comp.Rd man/evalLogLikNB.Rd man/evalImpulseModel_comp.Rd inst/doc/LineagePulse_Tutorial.Rmd inst/doc/LineagePulse_Tutorial.R