Man pages for ParkerICI/kumquat
Identification of stratifying subpopulations in Flow Cytometry Data (based on the Citrus package)
| citrus.buildEndpointModel | Build an endpoint model |
| citrus.buildFoldsEndpointModels | Build models from each fold of clustering |
| citrus.endpointRegress | Regress against an experimental endpoint |
| citrus.extractModelFeatures | Report model features at pre-specified thresholds. |
| citrus.generateRegularizationThresholds | Generate model regularization thresholds |
| citrus.getCVMinima | Get regularization thresholds of pre-selected... |
| citrus.modelTypes | List possible model types |
| citrus.plotClusters | Plot cluster histograms |
| citrus.predict | Predict labels of new feature set |
| citrus.selectClusters | Select clusters for further analysis |
| citrus.selectClusters.minimumClusterSize | Selects clusters for endpoint analysis |
| citrus.thresholdCVs | Calculate model error rates |
| get_cluster_features | Calculate cluster features for model building |
| get_model | Calculate a prediction model |
| kumquat | kumquat: Identification of stratifying subpopulations in Flow... |
| multistep_normalize | Normalize numeric data in multiple steps |
| plot.citrus.full.result | Plot a citrus.full.result |
| plot_error_rate | Plotting model error rate |
| plot_stratifying_clusters | Plotting stratifying clusters |
| plot_stratifying_features | Plot stratifying features |
| run_analysis | High level wrapper |
