Man pages for CytoSimplex
Simplex Visualization of Cell Fate Similarity in Single-Cell Data
| colNormalize | Normalize each column of the input matrix by the column sum |
| plotBinary | Create binary plots |
| plotQuaternary | Create quaternary simplex plots |
| plotQuaternary.Seurat | Craete quaternary simplex plot with Seurat object |
| plotQuaternary.simMat | Create quaternary simplex plot with pre-calculated similarity... |
| plotQuaternary.SingleCellExperiment | Create quaternary simplex plot with SingleCellExperiment... |
| plotTernary | Create ternary simplex plots |
| plotTernary.Seurat | Create ternary simplex plot with Seurat objects |
| plotTernary.simMat | Create quaternary simplex plot with pre-calculated similarity... |
| plotTernary.SingleCellExperiment | Create ternary simplex plot with SingleCellExperiment objects |
| print-quatPlot | Show plist object produced with plot3D package |
| readH5ADObsNames | Extract 'adata.obs_names' from an H5AD file |
| readH5ADObsVar | Extract a variable from adata.obs stored in an H5AD file |
| readH5ADUnsSpMat | Extract a sparse matrix from adata.uns stored in an H5AD file |
| readVelocytoLoom | Extract the raw counts from a LOOM file |
| rnaCluster | Major cell type annotation of the example mouse bone marrow... |
| rnaRaw | Mouse bone marrow scRNAseq example data |
| rnaVelo | Velocity graph of the example mouse bone marrow data |
| selectTopFeatures | Pick top differentially presented features for similarity... |
| writeQuaternaryGIF | Create GIF image for dynamic rotating view of 3D quaternary... |
