NAMESPACE

# Generated by roxygen2: do not edit by hand

export(add_cluster_colors)
export(add_mixingmetric)
export(adjust_zstat)
export(dt_to_granges)
export(find_neighbors)
export(generate_metadata)
export(get_DEGAS)
export(get_GWAS_Atlas)
export(get_HPO)
export(get_cs2g)
export(get_ctd)
export(get_dPRS)
export(get_mhc_genes)
export(get_top_factors)
export(get_top_features)
export(get_top_traits)
export(get_variance_explained)
export(import_abc)
export(is_granges)
export(iterate_gsea)
export(iterate_lm)
export(magma_matrix)
export(map_id_sep)
export(map_phenotypes)
export(map_snps2genes)
export(opengwas_meta)
export(phenomix_merge)
export(phenomix_query)
export(phenomix_query_batched)
export(plot_dag_enrich)
export(plot_enrichment)
export(plot_factors_sankey)
export(plot_feature_density)
export(plot_highlights)
export(plot_ontological_velocity)
export(plot_preservation_histo)
export(plot_pseudotime)
export(plot_reduction)
export(plot_top_celltypes)
export(plot_trait_cor)
export(plot_variancePartition)
export(prepare_hpo)
export(prepare_opentargets)
export(prepare_primekg)
export(regress_gene_info)
export(run_autoencoder)
export(run_dag_enrich)
export(run_gprofiler)
export(run_imputation)
export(run_integration)
export(run_lda)
export(run_mofa2)
export(run_pca)
export(run_sparsesvd)
export(run_umap)
export(run_variancePartition)
export(scale_color_nightlight)
export(theme_nightlight)
import(GenomicFiles)
import(HPOExplorer)
import(KGExplorer)
import(Seurat)
import(data.table)
import(echotabix)
import(scKirby)
importFrom(AnnotationDbi,select)
importFrom(BiocParallel,SnowParam)
importFrom(BiocParallel,register)
importFrom(GeneOverlap,newGeneOverlap)
importFrom(GeneOverlap,testGeneOverlap)
importFrom(GenomicRanges,GRanges)
importFrom(GenomicRanges,GRangesList)
importFrom(GenomicRanges,makeGRangesFromDataFrame)
importFrom(MASS,lda)
importFrom(Matrix,t)
importFrom(MungeSumstats,find_sumstats)
importFrom(MungeSumstats,get_genome_builds)
importFrom(VariantAnnotation,AllVariants)
importFrom(VariantAnnotation,CodingVariants)
importFrom(VariantAnnotation,IntronVariants)
importFrom(VariantAnnotation,PromoterVariants)
importFrom(VariantAnnotation,SpliceSiteVariants)
importFrom(VariantAnnotation,ThreeUTRVariants)
importFrom(VariantAnnotation,locateVariants)
importFrom(broom,tidy)
importFrom(data.table,":=")
importFrom(data.table,.SD)
importFrom(data.table,data.table)
importFrom(data.table,dcast.data.table)
importFrom(data.table,fread)
importFrom(data.table,rbindlist)
importFrom(data.table,setkey)
importFrom(data.table,uniqueN)
importFrom(downloadR,downloader)
importFrom(dplyr,arrange)
importFrom(dplyr,desc)
importFrom(dplyr,mutate)
importFrom(dplyr,slice_head)
importFrom(ggplot2,ggsave)
importFrom(ggrepel,geom_text_repel)
importFrom(gprofiler2,gost)
importFrom(graphics,hist)
importFrom(heatmaply,heatmaply)
importFrom(methods,is)
importFrom(methods,slot)
importFrom(parallel,mclapply)
importFrom(piggyback,pb_download)
importFrom(scales,rescale)
importFrom(sparsesvd,sparsesvd)
importFrom(stats,complete.cases)
importFrom(stats,lm)
importFrom(stats,median)
importFrom(stats,na.omit)
importFrom(stats,p.adjust)
importFrom(stats,prcomp)
importFrom(stats,quantile)
importFrom(stats,runif)
importFrom(stats,sd)
importFrom(stats,setNames)
importFrom(stringr,str_split)
importFrom(tibble,column_to_rownames)
importFrom(tools,R_user_dir)
importFrom(utils,head)
importFrom(utils,installed.packages)
importFrom(utils,read.csv)
importFrom(utils,unzip)
importFrom(utils,write.csv)
importFrom(uwot,umap)
importFrom(variancePartition,fitExtractVarPartModel)
importFrom(variancePartition,plotPercentBars)
importFrom(variancePartition,plotVarPart)
importFrom(variancePartition,sortCols)