Files in wu-lab-uva/RasperGade

Reconstructing Ancestral State under Pulsed Evolution in R by Gaussian Decomposition

R/MixNorm.R R/PEpois.R R/RasperGade_Gaussian_decomposition.R R/RasperGade_alias.R R/RasperGade_confidence_interval.R R/RasperGade_cross_validation.R R/RasperGade_diagnosis.R R/RasperGade_diagnosis_utils.R R/RasperGade_fitting.R R/RasperGade_fitting_utils.R R/RasperGade_global_ancestral_state.R R/RasperGade_hidden_state_prediction.R R/RasperGade_node_tracking.R R/RasperGade_normal_approximation.R R/RasperGade_reconstruction.R R/RasperGade_reconstruction_utils.R R/RasperGade_simulation.R R/ape_utils.R README.md man/F_beta_score.Rd man/LOO_CV_with_BM.Rd man/LOO_CV_with_PE.Rd man/MixNormal.Rd man/PEpoisnorm.Rd man/analyzeResidualError.Rd man/calculateBinomRSS.Rd man/calculateHeteroscedasticity.Rd man/calculate_CI.Rd man/calculate_R2CV.Rd man/calculate_error_mean_and_var.Rd man/compoundNormalMoments.Rd man/continuousAceByPIC.Rd man/discretizeResult.Rd man/findBestNormalApproximation.Rd man/findSisters.Rd man/findTerminalPIC.Rd man/fitModel2Step.Rd man/fitPE.Rd man/fullMarginalReconstructionWithPE.Rd man/getAncestor.Rd man/getConnected.Rd man/getModel.Rd man/getNextDescendants.Rd man/getRoot.Rd man/globalReconstructionWithPE.Rd man/initializeParams.Rd man/locate_query_sequences.Rd man/logitSigmoid.Rd man/make_traceable_node_labels.Rd man/marginalReconstruction.Rd man/mix_errors_by_weight.Rd man/partition_test_set_with_minimum_distance.Rd man/predictHiddenStateWithPE.Rd man/predict_hidden_state_by_pic.Rd man/processVariance.Rd man/productNormalDensity.Rd man/pseudoPIC.Rd man/pseudoZscore.Rd man/reconstructAncestralStates.Rd man/reroot_tree_at_tip.Rd man/simulatePET.Rd man/sort_and_digest.Rd man/summarizeModel.Rd