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NAMESPACE
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NAMESPACE
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# Generated by roxygen2: do not edit by hand
export(anno_finemap_res)
export(assemble_region_data)
export(compute_gene_z)
export(compute_region_nonSNP_PIPs)
export(convert_fusion_to_predictdb)
export(convert_geno_to_LD_matrix)
export(create_predictdb_from_QTLs)
export(create_snp_LD_map)
export(create_snp_map)
export(ctwas_sumstats)
export(ctwas_sumstats_noLD)
export(diagnose_LD_mismatch_susie)
export(est_param)
export(estimate_region_L)
export(expand_region_data)
export(finemap_regions)
export(finemap_regions_noLD)
export(get_gene_annot_from_ens_db)
export(get_problematic_genes)
export(get_region_cor)
export(load_LD)
export(load_fusion_weights)
export(load_predictdb_weights)
export(load_weights)
export(make_convergence_plots)
export(make_locusplot)
export(merge_region_data)
export(merge_region_data_noLD)
export(preprocess_weights)
export(preprocess_z_snp)
export(screen_regions)
export(screen_regions_noLD)
export(summarize_param)
importFrom(AnnotationFilter,GeneIdFilter)
importFrom(Matrix,bdiag)
importFrom(Matrix,colMeans)
importFrom(Matrix,colSums)
importFrom(Matrix,crossprod)
importFrom(Matrix,diag)
importFrom(Matrix,readMM)
importFrom(Matrix,rowSums)
importFrom(Matrix,t)
importFrom(Matrix,tcrossprod)
importFrom(RSQLite,dbConnect)
importFrom(RSQLite,dbDisconnect)
importFrom(RSQLite,dbDriver)
importFrom(RSQLite,dbGetQuery)
importFrom(RSQLite,dbWriteTable)
importFrom(cowplot,plot_grid)
importFrom(cowplot,theme_cowplot)
importFrom(crayon,combine_styles)
importFrom(data.table,fread)
importFrom(data.table,fwrite)
importFrom(data.table,rbindlist)
importFrom(dplyr,group_by)
importFrom(dplyr,left_join)
importFrom(dplyr,mutate)
importFrom(dplyr,n)
importFrom(dplyr,rename)
importFrom(dplyr,select)
importFrom(dplyr,summarise)
importFrom(dplyr,ungroup)
importFrom(ensembldb,genes)
importFrom(ggplot2,aes)
importFrom(ggplot2,aes_string)
importFrom(ggplot2,element_blank)
importFrom(ggplot2,element_line)
importFrom(ggplot2,element_text)
importFrom(ggplot2,expand_limits)
importFrom(ggplot2,geom_abline)
importFrom(ggplot2,geom_hline)
importFrom(ggplot2,geom_line)
importFrom(ggplot2,geom_point)
importFrom(ggplot2,geom_rect)
importFrom(ggplot2,geom_segment)
importFrom(ggplot2,geom_vline)
importFrom(ggplot2,ggplot)
importFrom(ggplot2,ggtitle)
importFrom(ggplot2,guide_legend)
importFrom(ggplot2,guides)
importFrom(ggplot2,labs)
importFrom(ggplot2,margin)
importFrom(ggplot2,scale_alpha_manual)
importFrom(ggplot2,scale_color_manual)
importFrom(ggplot2,scale_fill_manual)
importFrom(ggplot2,scale_shape_manual)
importFrom(ggplot2,scale_size_manual)
importFrom(ggplot2,theme)
importFrom(ggplot2,theme_bw)
importFrom(ggplot2,xlab)
importFrom(ggplot2,xlim)
importFrom(ggplot2,ylab)
importFrom(ggrepel,geom_text_repel)
importFrom(grid,unit)
importFrom(locuszoomr,gg_genetracks)
importFrom(locuszoomr,locus)
importFrom(logging,addHandler)
importFrom(logging,loginfo)
importFrom(logging,logwarn)
importFrom(logging,writeToFile)
importFrom(magrittr,"%>%")
importFrom(methods,as)
importFrom(mixsqp,mixsqp)
importFrom(parallel,mclapply)
importFrom(pgenlibr,GetVariantCt)
importFrom(pgenlibr,NewPgen)
importFrom(pgenlibr,NewPvar)
importFrom(pgenlibr,ReadList)
importFrom(readr,parse_number)
importFrom(rlang,.data)
importFrom(stats,.lm.fit)
importFrom(stats,ave)
importFrom(stats,coef)
importFrom(stats,complete.cases)
importFrom(stats,cor)
importFrom(stats,cov2cor)
importFrom(stats,dnorm)
importFrom(stats,lm)
importFrom(stats,median)
importFrom(stats,na.omit)
importFrom(stats,optim)
importFrom(stats,optimize)
importFrom(stats,pchisq)
importFrom(stats,pnorm)
importFrom(stats,rmultinom)
importFrom(stats,rnorm)
importFrom(stats,setNames)
importFrom(stats,summary.lm)
importFrom(stats,uniroot)
importFrom(stats,var)
importFrom(tools,file_ext)
importFrom(tools,file_path_sans_ext)
importFrom(utils,combn)
importFrom(utils,head)
importFrom(utils,modifyList)
importFrom(utils,packageVersion)
importFrom(utils,read.csv)
importFrom(utils,read.table)
importFrom(utils,setTxtProgressBar)
importFrom(utils,txtProgressBar)
importFrom(utils,write.table)