├── .Rbuildignore ├── DESCRIPTION ├── NAMESPACE ├── R ├── embeddr-package.R └── embeddr.R ├── README.md ├── man ├── calculate_metrics.Rd ├── cluster_embedding.Rd ├── compare_models.Rd ├── embeddr-package.Rd ├── embeddr.Rd ├── fit_null_model.Rd ├── fit_pseudotime.Rd ├── fit_pseudotime_model.Rd ├── fit_pseudotime_models.Rd ├── gene_pseudotime_test.Rd ├── laplacian_eigenmap.Rd ├── plot_embedding.Rd ├── plot_graph.Rd ├── plot_in_pseudotime.Rd ├── plot_pseudotime_density.Rd ├── plot_pseudotime_metrics.Rd ├── plot_pseudotime_model.Rd ├── predicted_expression.Rd ├── pseudotime.Rd ├── pseudotime_test.Rd ├── remove_pseudotime.Rd ├── reverse_pseudotime.Rd └── weighted_graph.Rd ├── tests └── README.md └── vignettes ├── quake_to_scater.Rmd └── vignette.Rmd /.Rbuildignore: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/kieranrcampbell/embeddr/HEAD/.Rbuildignore 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