├── .gitignore ├── DESCRIPTION ├── LICENSE ├── NAMESPACE ├── R ├── annotation.R ├── aurocs.R ├── markers.R ├── meta_markers.R ├── normalization.R ├── pareto_front.R └── visualization.R ├── README.md ├── doc ├── Annotation.html ├── HierarchicalAnnotation.html └── MetaMarkers.html ├── man ├── assign_cells.Rd ├── compute_aurocs.Rd ├── compute_marker_enrichment.Rd ├── compute_markers.Rd ├── compute_umap.Rd ├── convert_to_cpm.Rd ├── design_matrix.Rd ├── export_markers.Rd ├── export_markers_by_cell_type.Rd ├── export_markers_by_group.Rd ├── export_markers_for_cell_type.Rd ├── export_meta_markers.Rd ├── export_meta_markers_by_cell_type.Rd ├── get_cell_type.Rd ├── get_group.Rd ├── get_pareto_markers.Rd ├── make_meta_markers.Rd ├── marker_list_to_matrix.Rd ├── marker_table_to_matrix.Rd ├── plot_assignments.Rd ├── plot_marker_expression.Rd ├── plot_marker_scores.Rd ├── plot_pareto_markers.Rd ├── plot_pareto_summary.Rd ├── read_markers.Rd ├── read_meta_markers.Rd ├── remove_duplicated_genes.Rd ├── score_cells.Rd ├── summarize_auroc.Rd ├── summarize_fold_change.Rd └── summarize_precision_recall.Rd └── vignettes ├── Annotation.Rmd ├── HierarchicalAnnotation.Rmd └── MetaMarkers.Rmd /.gitignore: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/gillislab/MetaMarkers/HEAD/.gitignore -------------------------------------------------------------------------------- /DESCRIPTION: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/gillislab/MetaMarkers/HEAD/DESCRIPTION -------------------------------------------------------------------------------- /LICENSE: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/gillislab/MetaMarkers/HEAD/LICENSE -------------------------------------------------------------------------------- /NAMESPACE: 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