VISTA-package	VISTA-package
.align_de_to_counts	dot-align_de_to_counts
.categorize_deg_results	dot-categorize_deg_results
.EnhancedVolcano2	dot-EnhancedVolcano2
.prepare_pca_dataframe	dot-prepare_pca_dataframe
.run_deseq_comparisons	dot-run_deseq_comparisons
.tidy_de_results	dot-tidy_de_results
as_deseq_dataset	as_deseq_dataset
as_vista	as_vista
benchmark_vista_equivalence	benchmark_vista_equivalence
comparisons	VISTA-accessors
comparisons,VISTA-method	VISTA-accessors
counts	counts
counts,VISTA-method	counts
count_data	count_data
create_vista	create_vista
cutoffs	VISTA-accessors
cutoffs,VISTA-method	VISTA-accessors
deg_summary	VISTA-accessors
deg_summary,VISTA-method	VISTA-accessors
derive_vista_metadata	derive_vista_metadata
enrichMsigDB	enrichMsigDB
enrichMsigDB,VISTA-method	enrichMsigDB
example_vista	example_vista
export_vista_assets	export_vista_assets
get_celltype_barplot	get_celltype_barplot
get_celltype_group_dotplot	get_celltype_group_dotplot
get_celltype_heatmap	get_celltype_heatmap
get_cell_fractions	get_cell_fractions
get_chromosome_plot	get_chromosome_plot
get_corr_heatmap	get_corr_heatmap
get_deg_alluvial	get_deg_alluvial
get_deg_count_barplot	get_deg_count_barplot
get_deg_count_donutplot	get_deg_count_donutplot
get_deg_count_pieplot	get_deg_count_pieplot
get_deg_venn_diagram	get_deg_venn_diagram
get_enrichment_chord	get_enrichment_chord
get_enrichment_plot	get_enrichment_plot
get_expression_barplot	get_expression_barplot
get_expression_boxplot	get_expression_boxplot
get_expression_chromosome_plot	get_expression_chromosome_plot
get_expression_density	get_expression_density
get_expression_heatmap	get_expression_heatmap
get_expression_joyplot	get_expression_joyplot
get_expression_lineplot	get_expression_lineplot
get_expression_lollipop	get_expression_lollipop
get_expression_matrix	get_expression_matrix
get_expression_raincloud	get_expression_raincloud
get_expression_scatter	get_expression_scatter
get_expression_violinplot	get_expression_violinplot
get_foldchange_barplot	get_foldchange_barplot
get_foldchange_boxplot	get_foldchange_boxplot
get_foldchange_chromosome_plot	get_foldchange_chromosome_plot
get_foldchange_heatmap	get_foldchange_heatmap
get_foldchange_lineplot	get_foldchange_lineplot
get_foldchange_lollipop	get_foldchange_lollipop
get_foldchange_matrix	get_foldchange_matrix
get_foldchange_raincloud	get_foldchange_raincloud
get_foldchange_scatter	get_foldchange_scatter
get_genes_by_regulation	get_genes_by_regulation
get_go_enrichment	get_go_enrichment
get_gsea	get_gsea
get_kegg_enrichment	get_kegg_enrichment
get_ma_plot	get_ma_plot
get_mds_plot	get_mds_plot
get_msigdb_enrichment	get_msigdb_enrichment
get_pairwise_corr_plot	get_pairwise_corr_plot
get_pathway_genes	get_pathway_genes
get_pathway_heatmap	get_pathway_heatmap
get_pca_plot	get_pca_plot
get_umap_plot	get_umap_plot
get_volcano_plot	get_volcano_plot
group_colors	VISTA-accessors
group_colors,VISTA-method	VISTA-accessors
group_palette	VISTA-accessors
group_palette,VISTA-method	VISTA-accessors
match_vista_inputs	match_vista_inputs
norm_counts	VISTA-accessors
norm_counts,VISTA-method	VISTA-accessors
print.VISTA	print.VISTA
read_vista_counts	read_vista_counts
read_vista_metadata	read_vista_metadata
row_data	VISTA-accessors
row_data,VISTA-method	VISTA-accessors
run_cell_deconvolution	run_cell_deconvolution
run_deseq_analysis	run_deseq_analysis
run_edger_analysis	run_deseq_analysis
run_limma_analysis	run_deseq_analysis
run_vista_report	run_vista_report
sample_info	VISTA-accessors
sample_info,VISTA-method	VISTA-accessors
sample_metadata	sample_metadata
save_vista_data	save_vista_data
save_vista_plot	save_vista_plot
set_de_source	set_de_source
set_rowdata	set_rowdata
set_vista_comparison_colors	set_vista_comparison_colors
set_vista_group_colors	set_vista_group_colors
show,VISTA-method	VISTA-show
updateObject,VISTA-method	updateObject-VISTA-method
validate_vista	validate_vista
validate_vista_deep	validate_vista_deep
VISTA	VISTA-class
VISTA-accessors	VISTA-accessors
VISTA-class	VISTA-class
VISTA-deprecated	VISTA-deprecated
VISTA-show	VISTA-show
VISTA-subset	VISTA-subset
[,VISTA,ANY,ANY,ANY-method	VISTA-subset
[,VISTA,ANY,ANY-method	VISTA-subset
