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NAMESPACE
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142 lines (141 loc) · 3.87 KB
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# Generated by roxygen2: do not edit by hand
S3method(print,vcf_sanity_check)
export(run_app)
export(vcf_sanity_check)
export(vcf_sanity_messages)
import(BIGr)
import(GWASpoly)
import(dplyr)
import(ggplot2)
import(grDevices)
import(polyRAD)
import(rrBLUP)
import(shiny)
import(shinyWidgets)
import(shinydisconnect)
import(tibble)
import(tidyr)
import(updog)
import(utils)
import(vcfR)
importClassesFrom(adegenet,genlight)
importFrom(AGHmatrix,Amatrix)
importFrom(AGHmatrix,Gmatrix)
importFrom(AGHmatrix,Hmatrix)
importFrom(BIGr,flip_dosage)
importFrom(BIGr,updog2vcf)
importFrom(DT,DTOutput)
importFrom(DT,datatable)
importFrom(DT,renderDT)
importFrom(MASS,ginv)
importFrom(Matrix,nearPD)
importFrom(R.utils,gunzip)
importFrom(RColorBrewer,brewer.pal)
importFrom(Rsamtools,bgzip)
importFrom(adegenet,"pop<-")
importFrom(adegenet,dapc)
importFrom(adegenet,find.clusters)
importFrom(adegenet,nInd)
importFrom(adegenet,optim.a.score)
importFrom(adegenet,pop)
importFrom(adegenet,scatter.dapc)
importFrom(bs4Dash,box)
importFrom(bs4Dash,bs4Badge)
importFrom(bs4Dash,bs4DashNavbar)
importFrom(bs4Dash,bs4DashPage)
importFrom(bs4Dash,bs4DashSidebar)
importFrom(bs4Dash,dashboardBody)
importFrom(bs4Dash,dashboardFooter)
importFrom(bs4Dash,menuItem)
importFrom(bs4Dash,menuSubItem)
importFrom(bs4Dash,renderValueBox)
importFrom(bs4Dash,sidebarMenu)
importFrom(bs4Dash,tabBox)
importFrom(bs4Dash,tabItem)
importFrom(bs4Dash,tabItems)
importFrom(bs4Dash,updateBox)
importFrom(bs4Dash,updatebs4TabItems)
importFrom(bs4Dash,valueBox)
importFrom(bs4Dash,valueBoxOutput)
importFrom(config,get)
importFrom(curl,curl_fetch_memory)
importFrom(curl,new_handle)
importFrom(factoextra,get_eigenvalue)
importFrom(future,availableCores)
importFrom(golem,activate_js)
importFrom(golem,add_resource_path)
importFrom(golem,bundle_resources)
importFrom(golem,favicon)
importFrom(golem,with_golem_options)
importFrom(graphics,abline)
importFrom(graphics,axis)
importFrom(graphics,curve)
importFrom(graphics,hist)
importFrom(graphics,legend)
importFrom(graphics,mtext)
importFrom(graphics,par)
importFrom(graphics,points)
importFrom(graphics,polygon)
importFrom(graphics,rect)
importFrom(graphics,segments)
importFrom(graphics,strheight)
importFrom(graphics,strwidth)
importFrom(graphics,text)
importFrom(graphics,title)
importFrom(httr,GET)
importFrom(httr,content)
importFrom(httr,status_code)
importFrom(matrixcalc,is.positive.definite)
importFrom(methods,new)
importFrom(plotly,add_markers)
importFrom(plotly,ggplotly)
importFrom(plotly,layout)
importFrom(plotly,plot_ly)
importFrom(plotly,plotlyOutput)
importFrom(plotly,renderPlotly)
importFrom(purrr,map)
importFrom(purrr,set_names)
importFrom(readr,read_csv)
importFrom(reshape2,dcast)
importFrom(reshape2,melt)
importFrom(rrBLUP,A.mat)
importFrom(rrBLUP,kin.blup)
importFrom(rrBLUP,mixed.solve)
importFrom(scales,comma_format)
importFrom(shiny,NS)
importFrom(shiny,includeMarkdown)
importFrom(shiny,shinyApp)
importFrom(shiny,tagList)
importFrom(shiny,updateTabsetPanel)
importFrom(shinyWidgets,materialSwitch)
importFrom(shinyWidgets,progressBar)
importFrom(shinyWidgets,updateVirtualSelect)
importFrom(shinyWidgets,virtualSelectInput)
importFrom(shinyalert,shinyalert)
importFrom(shinycssloaders,withSpinner)
importFrom(shinydisconnect,disconnectMessage)
importFrom(shinyjs,disable)
importFrom(shinyjs,enable)
importFrom(shinyjs,inlineCSS)
importFrom(shinyjs,toggleClass)
importFrom(shinyjs,useShinyjs)
importFrom(stats,BIC)
importFrom(stats,as.formula)
importFrom(stats,cor)
importFrom(stats,lm)
importFrom(stats,logLik)
importFrom(stats,median)
importFrom(stats,model.matrix)
importFrom(stats,na.omit)
importFrom(stats,prcomp)
importFrom(stats,qbeta)
importFrom(stats,quantile)
importFrom(stats,runif)
importFrom(stats,sd)
importFrom(stats,setNames)
importFrom(stringr,str_split)
importFrom(tibble,rownames_to_column)
importFrom(vcfR,extract.gt)
importFrom(vcfR,is.biallelic)
importFrom(vcfR,read.vcfR)
importFrom(vcfR,write.vcf)