# Generated by roxygen2: do not edit by hand

export(CNVScopeserver)
export(GRanges_to_underscored_pos)
export(averageMatrixEdges)
export(calcCNVKernelProbDist)
export(calcVecLMs)
export(createChromosomalMatrixSet)
export(divisors)
export(downsample_genomic_matrix)
export(extractNegLogPval)
export(formSampleMatrixFromRawGDCData)
export(freadGDCfile)
export(getAnnotationMatrix)
export(getAsymmetricBlockIndices)
export(getBlockAverageMatrixFromBreakpoints)
export(getGlobalRescalingStats)
export(getInterchromosomalInteractivePlot)
export(importBreakpointBed)
export(mathead)
export(postProcessLinRegMatrix)
export(rebinGenomicInteractions)
export(runCNVScopeLocal)
export(runCNVScopeShiny)
export(signedRescale)
export(underscored_pos_to_GRanges)
export(writeAsymmetricMeltedChromosomalMatrixToDisk)
export(writeMeltedChromosomalMatrixToDisk)
import(GenomicInteractions, except = c(start,end))
import(RCurl, except = reset)
import(data.table, except = c(melt, dcast))
import(doParallel)
import(foreach)
import(ggplot2)
import(magrittr)
import(parallel)
import(reshape2)
import(shiny, except = c(runExample,renderDataTable))
import(stats)
importFrom(GenomicInteractions,anchorOne)
importFrom(GenomicInteractions,anchorTwo)
importFrom(Matrix,bandSparse)
importFrom(Matrix,colMeans)
importFrom(Matrix,rowMeans)
importFrom(Matrix,sparseMatrix)
importFrom(OpenImageR,down_sample_image)
importFrom(biomaRt,getBM)
importFrom(biomaRt,useMart)
importFrom(data.table,fread)
importFrom(dplyr,bind_cols)
importFrom(dplyr,everything)
importFrom(dplyr,mutate)
importFrom(dplyr,select)
importFrom(foreach,foreach)
importFrom(ggplot2,scale_fill_gradient2)
importFrom(jointseg,jointSeg)
importFrom(matrixStats,colSds)
importFrom(plyr,ddply)
importFrom(reshape2,colsplit)
importFrom(rtracklayer,import.bed)
importFrom(stringr,str_detect)
importFrom(tidyr,drop_na)
importFrom(tidyr,unite)
