Man pages for CoDaLoMic
Compositional Models to Longitudinal Microbiome Data
| B1MODImatrizP | Ridge regression matrix |
| B1MODImodel | Obtaining the regression value of the FBM |
| Balance | Calculating the balance of the FBM model |
| BPBM_Matrix | Obtains the matrix of covariates of the BPBM |
| cockroach | cockroach dataset |
| CoDaLoMic-package | CoDaLoMic |
| Estimate_Param_EstParmFunc | Estimating Parameters of EstParmFunc |
| Estimate_Param_FBM | Estimating Parameters of EstParmFunc_FBM |
| Estimating_BPBM | Estimating BPBM |
| EstParmFunc | Writting the loglikelihood of the dirichlet |
| EstParmFunc_FBM | Writting the loglikelihood of the dirichlet |
| ExpectedValue_EstParmFunc | Obtaining the value of the Dirichlet parameters, the expected... |
| ExpectedValues_EstParmFunc_FBM | Obtainig the value of the dirichlet parameters, the expected... |
| ExpectedValuess_BPBM | Obtainig the value of the dirichlet parameters, the expected... |
| FromVectorToMatrix_BPBM | Writting the parameters in the matrix form required in BPBM... |
| FVectorPBmodeloPredi | Obtaining a vector with the covariates of the prediction |
| Graphics | Plots the time series |
| GraphicsPrediction | Plots the time series |
| GraphicsPredictionBPBM | Plots the time series |
| GraphicsSPBal | Obtaining the graphic of the SPBal at all time points |
| LogVeroFuncBUENA | Writting the loglikelihood of the dirichlet |
| MaxBacteria | Putting the reference bacteria at the last row |
| MaxBacteriaPred | Putting the reference bacteria at the last row |
| ObtainigValuePB | Obtaining the principal balances values |
| ObtainigValueSPBal | Obtaining the selected principal balances values |
| ObtainingDIC | Writting the loglikelihood of the dirichlet |
| PBalance | Calculating balances |
| PBalancePredi | Calculating balances for a composition |
| PBmodel | Obtaining the regression value of the BPBM |
| PCAbiplot | PCA of the estimated parameters |
| Percen_Variance | Percentage of variance |
| PlotDendogram | Plotting a dendogram |
| PredictionBPBM | Predicting using BPBM |
| PredictionEstParmFunc | Predicting using dirichl-gLV |
| PredictionFBM | Predicting using FBM |
| PreparingTheData | Preparing dataset |
| QualityControl | Analysing the quality of the estimation |
| ridgeregression | Ridge regression |
| rxnrate | Solving the right side of the gLV equations |
| Simulated | Gut microbiome simulated dataset |
| StudyingParam | Controlling quality of the convergence in BPBM |
| Table_alr_Dirich_glv | Obtainig a table with the interpretable parameters |
| TableBPBM | Obtaining a table with the SPBal information of the BPBM |
| TableFBM | Obtainig a table with the interpretable parameters |
| TauAndParameters_EstParmFunc_FBM | Obtaining the value of tau and the estimate value of the rest... |
| vecttor | Alr of a bacteria |
| ZeroData | Zero replacement |
