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NAMESPACE
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90 lines (89 loc) · 2.49 KB
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# Generated by roxygen2: do not edit by hand
S3method(print,hla_genotype)
export(batchGetSequences)
export(calculateAUC)
export(calculateEpletLoad)
export(calculateMismatchLoad)
export(calculatePeptideBindingLoad)
export(clearSequenceCache)
export(clearWmdaCache)
export(cregAUC)
export(deepmatchrEnv)
export(epletAUC)
export(getAlleleSequence)
export(getSequenceStats)
export(hlaGeno)
export(plotAntibodies)
export(plotEplets)
export(plotPRA)
export(plotSAB)
export(predictMHCnuggets)
export(quantifyEpletMismatch)
export(quantifyMismatch)
export(serologyAUC)
export(toSerology)
export(updateWmdaData)
export(visualizePeptideBinding)
importFrom(basilisk,basiliskRun)
importFrom(basilisk,basiliskStart)
importFrom(basilisk,basiliskStop)
importFrom(data.table,`:=`)
importFrom(data.table,as.data.table)
importFrom(data.table,data.table)
importFrom(data.table,fifelse)
importFrom(data.table,rbindlist)
importFrom(data.table,set)
importFrom(data.table,setcolorder)
importFrom(data.table,setkey)
importFrom(data.table,setnames)
importFrom(data.table,setorder)
importFrom(data.table,shift)
importFrom(dplyr,desc)
importFrom(dplyr,group_by)
importFrom(dplyr,summarise)
importFrom(ggplot2,"%+replace%")
importFrom(ggplot2,aes)
importFrom(ggplot2,coord_flip)
importFrom(ggplot2,element_blank)
importFrom(ggplot2,geom_bar)
importFrom(ggplot2,geom_line)
importFrom(ggplot2,geom_point)
importFrom(ggplot2,geom_text)
importFrom(ggplot2,geom_tile)
importFrom(ggplot2,geom_vline)
importFrom(ggplot2,ggplot)
importFrom(ggplot2,guides)
importFrom(ggplot2,labs)
importFrom(ggplot2,rel)
importFrom(ggplot2,scale_color_manual)
importFrom(ggplot2,scale_fill_gradient2)
importFrom(ggplot2,scale_fill_manual)
importFrom(ggplot2,scale_size)
importFrom(ggplot2,scale_y_discrete)
importFrom(ggplot2,theme)
importFrom(ggplot2,theme_minimal)
importFrom(ggplot2,xlim)
importFrom(ggplot2,ylab)
importFrom(ggplot2,ylim)
importFrom(grDevices,hcl.colors)
importFrom(immReferent,getIMGT)
importFrom(memoise,cache_filesystem)
importFrom(memoise,memoise)
importFrom(parallel,detectCores)
importFrom(parallel,mclapply)
importFrom(patchwork,plot_layout)
importFrom(pwalign,pairwiseAlignment)
importFrom(pwalign,pattern)
importFrom(pwalign,score)
importFrom(pwalign,subject)
importFrom(readxl,read_excel)
importFrom(reticulate,import)
importFrom(reticulate,py_run_string)
importFrom(stats,as.formula)
importFrom(stats,reorder)
importFrom(stats,setNames)
importFrom(stats,xtabs)
importFrom(utils,data)
importFrom(utils,globalVariables)
importFrom(utils,head)
importFrom(utils,read.csv)