Improving replicability in single-cell RNA-Seq cell type
discovery
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Documentation for package ‘Dune’ version 1.19.0
Help Pages
| .adjustedRandIndex | adjustedRandIndex |
| ARIImp | ARI improvement |
| ARIs | ARI Matrix |
| ARItrend | ARI improvement plot |
| clusMat | A clustering matrix used to demonstrate the ari-merging process. |
| clusterConversion | clusterConversion |
| ConfusionEvolution | Plot the evolution of the ConfusionPlot as merging happens |
| ConfusionPlot | Plot confusion matrix |
| Dune | Dune |
| Dune-method | Dune |
| functionTracking | Track the evolution of a function along merging |
| intermediateMat | Find the clustering matrix that we would get if we stopped the ARI merging early |
| NMIImp | NMI improvement |
| NMIs | NMI Matrix |
| NMItrend | NMI improvement plot |
| nuclei | Cluster labels for a subset of the allen Smart-Seq nuclei dataset |
| plotARIs | Plot an heatmap of the ARI matrix |
| plotNMIs | Plot an heatmap of the NMI matrix |
| plotPrePost | Plot the reduction in cluster size for an ARI merging with 'Dune' |
| whenToStop | When to Stop |