branch_differential_expression | differential expression in specific branch |
CalculateElasticTree | Calculate Elastic Tree |
CalculateElasticTreeConstrained | Calculate elastic tree with iterative constraints |
CalculatePseudotimes | Calculate Pseudotime |
CalculateScaffoldTree | Calculate Scaffold tree |
dataset_n_observations | From destiny: Helper function for diffusion map calculations. |
DuplicateTreeNodes | Duplicate Elastic Tree Nodes Introduces intermediate nodes in... |
GenesSpaceEmbedding | Gene Space Embedding |
GetGeneCorrelationNetwork | Get Gene Correlation Network |
get_node_graph | Calculates an adjacency matrix for the support nodes of an... |
GetTrajectory | Get Cells from Trajectory |
inflate_elastic_tree | Takes an elastic tree calculated on reduced coordinates and... |
LoadExprMatrix | LoadExprMatrix |
plot_elastic_tree | Plot Elastic Tree |
plot_flattened_tree | Plots a flattened 2 dimensional version of the Elastic Tree... |
plot_flattened_tree_gene_expression | Plots the gene expression level of a gene on a flattened 2... |
plot_gene_on_map | Plots Gene Expression on Cells Coordinates |
plot_heatmaps_embedding | Plot Expression Matrix Embedding |
plot_pseudotime_expression_gene | Plot pseudotime expression gene |
plot_pseudotimes | Plot cells pseudotime |
plot_scaffold_tree | Plot Scaffold Tree |
ReadDataset | ReadDataset |
seurat_normalize | seurat normalize |
seurat_variable_genes | Seurat variable genes, according to the Seurat's package |
subpopulations_differential_expression | Subpopulations differential expression |
wrap.DiffusionMap | From destiny: Wrapper to create a diffusion map of cells. |
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