Man pages for jrSiCKLSNMF
Multimodal Single-Cell Omics Dimensionality Reduction
| AddSickleJrMetadata | Add metadata to an object of class SickleJr |
| BuildKNNGraphLaplacians | Build KNN graphs and generate their graph Laplacians |
| BuildSNNGraphLaplacians | Build SNN graphs and generate their graph Laplacians |
| CalculateUMAPSickleJr | Calculate the UMAP for an object of class SickleJr |
| ClusterSickleJr | Cluster the \mathbf{H} matrix |
| CreateSickleJr | Create an object of class SickleJr |
| DetermineClusters | Perform clustering diagnostics |
| DetermineDFromIRLBA | Create elbow plots of the singular values derived from IRLBA... |
| GenerateWmatricesandHmatrix | Initialize the \mathbf{W} matrices in each modality and the... |
| jrSiCKLSNMF | Run jrSiCKLSNMF outside of a SickleJr object |
| MinibatchDiagnosticPlot | Plot a diagnostic plot for the mini-batch algorithm |
| NormalizeCountMatrices | Normalize the count matrices and set whether to use the... |
| PlotLossvsLatentFactors | Create plots to help determine the number of latent factors |
| PlotSickleJrUMAP | Generate UMAP plots for an object of class SickleJr |
| RunjrSiCKLSNMF | Run jrSiCKLSNMF on an object of class SickleJr |
| SetLambdasandRowReg | Set lambda values and type of row regularization for an... |
| SetWandHfromWHinitials | Set \mathbf{W} matrices and \mathbf{H} matrix from... |
| SickleJr-class | The SickleJr class |
| SimData | A simulated dataset for use with jrSiCKLSNMF |
| SimSickleJrSmall | A small SickleJr object containing a subset of data from the... |
