Man pages for BIMSBbioinfo/netSmooth
Network smoothing for scRNAseq
| calc2DEntropy | Calculate entropy in 2D data |
| clusterExperimentWorkflow | Performs clustering workflow using 'clusterExperiment'... |
| clusterOne | Run one clustering using kmeans o PAM |
| dimReduce | Get lower dimension embedding |
| human.ppi | Human Protein-Protein interaction graph |
| l1NormalizeColumns | Column-normalize a sparse, symmetric matrix (using the l1... |
| l1NormalizeRows | Row-normalize a sparse, symmetric matrix (using the l1 norm)... |
| mouse.ppi | Mouse Protein-Protein interaction graph |
| netSmooth | Perform network smoothing of gene expression or other omics... |
| pickDimReduction | Pick the dimensionality reduction method for a dataset that... |
| projectFromNetworkRecombine-matrix-method | Combine gene expression from smoothed space (that of the... |
| projectOnNetwork | Project the gene expression matrix onto a lower space of the... |
| randomWalkByIterations | Smooth data on graph by computing iterations |
| randomWalkByMatrixInv-matrix-method | Smooth data on graph by computing the closed-form steady... |
| randomWalkBySolve-matrix-method | Smooth data on graph by solving the linear equation (I -... |
| robustClusters | Perform robust clustering on dataset, and calculate the... |
| scoreSmoothing | Calculate a score for a smoothing result, for picking the... |
| smallPPI | A small human Protein-Protein interaction graph for use in... |
| smallscRNAseq | A small single cell RNA-seq dataset for use in examples. |
| smoothAndRecombine-matrix-method | Perform network smoothing on network when the network genes... |
