Files in altairwei/rhapsodykit

A Set of Tools for BD Rhapsody WTA Downstream Analysis

LICENSE.md R/data.R R/differential_abundance.R R/differential_state.R R/pseudobulk.R R/seurat.R R/upsetplot.R R/utils-pipe.R R/utils.R R/visualization.R man/barplot_cluster_abundance.Rd man/calculateClusterProportion.Rd man/calculate_pseudo_bulk.Rd man/diff_state_apply.Rd man/diff_state_filter.Rd man/diff_state_format.Rd man/diff_state_pull.Rd man/diff_state_ranked_lfc.Rd man/diff_state_significant.Rd man/diff_state_significant_lfc.Rd man/diff_state_subset.Rd man/diff_state_summary.Rd man/expr_freq_filter.Rd man/fetch_cellular_data.Rd man/findDACombinedClusters.Rd man/findDiffAbundantCells.Rd man/findDiffAbundantMarkers.Rd man/find_all_avg_expr_genes.Rd man/find_all_conserved_markers.Rd man/find_all_diff_expr_genes.Rd man/find_group_marker_genes.Rd man/from_list_to_upset.Rd man/genecount_diff_state.Rd man/generate_seurat_plots.Rd man/heatmap_cross_sample.Rd man/integrated_sample_analysis.Rd man/integration_analysis.Rd man/integration_anchorset.Rd man/intersection_counts.Rd man/key_mapping.Rd man/make_integrated_pseudo_bulk.Rd man/make_pseudo_bulk.Rd man/merge_sample.Rd man/onlyDAscore.Rd man/perform_diff_gene.Rd man/perform_find_all_markers.Rd man/pipe.Rd man/plotDACellLabel.Rd man/plotDACellScore.Rd man/plotDAEmbedding.Rd man/plotDAOverlap.Rd man/plotDARandomPermutation.Rd man/plotDASite.Rd man/plot_avg_expr_genes.Rd man/prepare_muscat_sce.Rd man/pseudobulk_diff_state.Rd man/read_expression_st.Rd man/read_molecules_csv.Rd man/read_mols_per_cell.Rd man/read_mtx.Rd man/read_rhapsody_wta.Rd man/read_unfiltered_csv.Rd man/reassign_sample.Rd man/save_expression_matrix.Rd man/save_plot.Rd man/save_to_disk.Rd man/single_sample_analysis.Rd man/upset_dataframe.Rd man/upset_plot.Rd man/upset_updown_regulated.Rd man/volcano_diff_state.Rd renv/activate.R tests/testthat.R tests/testthat/test-psuedobulk.R tests/testthat/test-seurat-utils.R