# Generated by roxygen2: do not edit by hand

export(hierarchicalClones)
export(identicalClones)
export(plotCloneSummary)
export(spectralClones)
exportClasses(ScoperClones)
exportMethods(as.data.frame)
exportMethods(plot)
exportMethods(print)
exportMethods(summary)
import(ggplot2)
import(graphics)
import(methods)
import(utils)
importFrom(Rcpp,evalCpp)
importFrom(alakazam,
  baseTheme,
  checkColumns,
  getAAMatrix,
  getDNAMatrix,
  getLocus,
  groupGenes,
  padSeqEnds,
  pairwiseDist,
  progressBar,
  translateDNA
)
importFrom(data.table,
  .I,
  as.data.table
)
importFrom(doParallel,registerDoParallel)
importFrom(dplyr,
  "%>%",
  arrange,
  bind_rows,
  distinct,
  do,
  filter,
  group_by,
  group_indices,
  left_join,
  mutate,
  n,
  select,
  slice,
  summarize,
  ungroup
)
importFrom(fastcluster,hclust)
importFrom(foreach,
  "%dopar%",
  foreach,
  registerDoSEQ
)
importFrom(rlang,
  sym,
  syms
)
importFrom(scales,pretty_breaks)
importFrom(shazam,consensusSequence)
importFrom(stats,
  as.dist,
  cor,
  cutree,
  density,
  kmeans,
  sd,
  setNames
)
importFrom(stringi,
  stri_count,
  stri_join,
  stri_length,
  stri_split_fixed
)
importFrom(tidyr,separate)
useDynLib(scoper, .registration=TRUE)
