Man pages for MicrobiomeSurv
Biomarker Validation for Microbiome-Based Survival Classification and Prediction
| CoxPHUni | This function will fit the full and reduced models and... |
| CVLasoelascox | Cross Validations for Lasso Elastic Net Survival predictive... |
| cvle-class | The cvle Class. |
| CVMajorityvotes | Cross validation for majority votes |
| cvmm-class | The cvmm Class. |
| CVMSpecificCoxPh | Cross validation for the Taxon specific analysis |
| cvmv-class | The cvmv Class. |
| CVPcaPls | Cross Validations for PCA and PLS based methods |
| cvpp-class | The cvpp Class. |
| CVSITaxa | Cross validation for sequentially increases taxa |
| cvsit-class | The cvsit Class. |
| data_zero_per_group_otu_w3 | Zero per treatment groups. |
| DistHR | Null Distribution of the Estimated HR |
| EstimateHR | Classification, Survival Estimation and Visualization |
| fam_info_w3 | Information at family level. |
| fam_shan_trim_w3 | Dataset at family level. |
| FirstFilter | This function is used for the first step of filtering which... |
| GetRA | This function convert OTU matrix to RA matrix. |
| Lasoelascox | Wapper function for glmnet |
| Majorityvotes | Classifiction for Majority Votes |
| metadata_taxonomy | Metadata taxonomy. |
| MiFreq | Frequency of Selected Taxa from the LASSO, Elastic-net... |
| ms-class | The ms Class. |
| MSpecificCoxPh | Taxon by taxon Cox proportional analysis |
| perm-class | The perm Class. |
| QuantileAnalysis | Quantile sensitivity analysis |
| SecondFilter | This function is used for the second step of filtering which... |
| SITaxa | Sequential Increase in Taxa for the PCA or PLS classifier |
| SummaryData | This function gives indices such as Observed richness,... |
| SurvPcaClass | Survival PCA and Classification for microbiome data |
| SurvPlsClass | Survival PLS and Classification for microbiome data |
| Top1Uni | This function finds out the taxon has the smallest p-value,... |
| Week3_otu | OTU table at week 3. |
| Week3_response | Response datase. |
| ZerosPerGroup | This function returns a matrix with rows are Micros and 9... |
