Files in Core-Bioinformatics/ClustAssess
Tools for Assessing Clustering

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ClustAssess.Rproj

DESCRIPTION

LICENSE

NAMESPACE

R/ECS.R R/PAC.R R/RcppExports.R R/convert.R R/generics.R R/marker-overlap.R R/shiny-app.R R/shiny-comparisons.R R/shiny-feature-stability.R R/shiny-graph-clustering.R R/shiny-graph-construction.R R/shiny-info.R R/shiny-landing-page.R R/shiny-sandbox.R R/shiny-utils.R R/stability-1-dim-reduction.R R/stability-2-graph-construction.R R/stability-3-graph-clustering.R R/stability-based-parameter-assessment.R R/utils.R README.md

_pkgdown.yml

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inst/CITATION

man/Clustering-class.Rd man/add_metadata.Rd man/assess_clustering_stability.Rd man/assess_feature_stability.Rd man/assess_nn_stability.Rd man/automatic_stability_assessment.Rd man/calculate_markers.Rd man/calculate_markers_shiny.Rd man/choose_stable_clusters.Rd man/consensus_cluster.Rd man/create_clustering.Rd man/create_monocle_default.Rd man/create_monocle_from_clustassess.Rd man/create_monocle_from_clustassess_app.Rd man/create_seurat_object_default.Rd man/create_seurat_object_from_clustassess_app.Rd man/element_agreement.Rd man/element_consistency.Rd man/element_sim.Rd man/element_sim_elscore.Rd man/element_sim_matrix.Rd

man/figures/ClustAssess_app_supp.png

man/figures/ClustAssess_diagram_all.png

man/figures/ClustAssess_starry_night.png

man/getNNmatrix.Rd man/get_clusters_from_clustassess_object.Rd man/get_highest_prune_param.Rd man/get_highest_prune_param_embedding.Rd man/get_nn_conn_comps.Rd man/length-Clustering-method.Rd man/marker_overlap.Rd man/merge_partitions.Rd man/merge_resolutions.Rd man/pac_convergence.Rd man/pac_landscape.Rd man/plot_clustering_difference_facet.Rd man/plot_clustering_overall_stability.Rd man/plot_clustering_per_value_stability.Rd man/plot_connected_comps_evolution.Rd man/plot_feature_overall_stability_boxplot.Rd man/plot_feature_overall_stability_incremental.Rd man/plot_feature_per_resolution_stability_boxplot.Rd man/plot_feature_per_resolution_stability_incremental.Rd man/plot_feature_stability_ecs_facet.Rd man/plot_feature_stability_mb_facet.Rd man/plot_k_n_partitions.Rd man/plot_k_resolution_corresp.Rd man/plot_n_neigh_ecs.Rd man/plot_n_neigh_k_correspondence.Rd man/print-Clustering-method.Rd man/server_comparisons.Rd man/server_dimensionality_reduction.Rd man/server_graph_clustering.Rd man/server_graph_construction.Rd man/server_landing_page.Rd man/server_sandbox.Rd man/ui_comparisons.Rd man/ui_dimensionality_reduction.Rd man/ui_graph_clustering.Rd man/ui_graph_construction.Rd man/ui_landing_page.Rd man/ui_sandbox.Rd man/weighted_element_consistency.Rd man/write_objects.Rd man/write_shiny_app.Rd

src/RcppExports.cpp

src/calculate_ecs.cpp

src/calculate_pac.cpp

src/optimise_snn.cpp

src/update_connectivity.cpp

src/wilcox.cpp

tests/testthat.R tests/testthat/test-ECS.R vignettes/ClustAssess.Rmd vignettes/comparing-soft-and-hierarchical.Rmd vignettes/stability-dim-reduction-flexibility.Rmd vignettes/stability-pipeline-description.Rmd vignettes/stability-pipeline-shiny.Rmd

Core-Bioinformatics/ClustAssess documentation built on Dec. 19, 2024, 8:19 p.m.

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Core-Bioinformatics/ClustAssess
Tools for Assessing Clustering

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Core-Bioinformatics/ClustAssess Tools for Assessing Clustering

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Core-Bioinformatics/ClustAssess
Tools for Assessing Clustering

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