Man pages for jr-leary7/SCISSORS
Identify cell subpopulations in single cell RNA-seq data
| AnnotateMarkerGenes | Annotate differentially expressed genes using 'biomaRt'. |
| ChoosePCs | Automatically choose the number of principal components. |
| ComputeSilhouetteScores | Calculate the silhouette score of a clustering. |
| ConvertGeneOrthologs | Convert a vector of MGI symbols to their HGNC orthologs and... |
| CosineDist | Compute the cosine distance matrix. |
| FindFilteredMarkers | Find marker genes for a given set of cells, and filter out... |
| FindSpecificMarkers | Find highly specific marker genes for all clusters in a... |
| FindSubpopulationMarkers | Identify marker genes for previously identified... |
| IntegrateSubclusters | Integrate estimated subcluster identities into the original... |
| PrepareData | Prepare scRNA-seq data for reclustering. |
| ReclusterCells | Identify subpopulations in single cell clusters. |
| ReduceDimensions | Run PCA / t-SNE / UMAP / PHATE. |
| RunPHATE | Perform nonlinear dimension reduction using PHATE. |
| theme_yehlab | A clean 'ggplot2' theme for dimension reduction plots. |
