Man pages for neobernad/evaluomeR
Evaluation of Bioinformatics Metrics
| annotateClustersByMetric | Calculate the cluster ID from the optimal cluster per metric... |
| ATSC | Automated Trimmed & Sparse Clustering |
| bioMetrics | Dataset: Metrics for biological pathways |
| cleanDataset | Clean Dataset |
| determineNumberOfFactors | Determine Number of Factors |
| evaluomeRSupportedCBI | Get supported CBIs in evaluomeR. |
| getDataQualityRange | Dataframe getter for 'qualityRange' function. |
| getMetricRangeByCluster | Get the range of each metric per cluster from the optimal... |
| getMetricsRelevancy | Get the range of each metric per cluster from the optimal... |
| getOptimalKValue | Calculating the optimal value of k. getOptimalKValue |
| getRSKCAlpha | Computes best alpha using Robust and Sparse Clustering... |
| getRSKCL1Boundry | Computes L1 boundry getRSKCL1Boundry |
| globalMetric | Global metric score defined by a prediction. |
| metricsCorrelations | Calculation of Pearson correlation coefficient. |
| ontMetrics | Dataset: Structural ontology metrics |
| PCASuitability | PCA Suitability |
| performPCA | Perform PCA |
| plotMetricsBoxplot | Metric values as a boxplot. |
| plotMetricsCluster | Metric values clustering. |
| plotMetricsClusterComparison | Comparison between two clusterings as plot.... |
| plotMetricsMinMax | Minimum and maximum metric values plot. |
| plotMetricsViolin | Metric values as violin plot. |
| plotPCA_fviz_biplot | PCA Biplot |
| plotPCA_fviz_screeplot | Scree Plot for PCA |
| quality | Goodness of classifications. |
| qualityRange | Goodness of classifications for a range of k clusters. |
| qualitySet | Goodness of classifications for a set of k clusters. |
| removeCorrelations | Remove Correlations |
| removeNonNumericColumns | Remove Non-Numeric Columns |
| rnaMetrics | Dataset: RNA quality metrics |
| stability | Stability index. |
| stabilityRange | Stability index for a range of k clusters. |
| stabilitySet | Stability index for a set of k clusters. |
