# Generated by roxygen2: do not edit by hand

export(cleanSeqs)
export(findNovelAlleles)
export(findUnmutatedCalls)
export(generateEvidence)
export(genotypeFasta)
export(getMutCount)
export(getMutatedPositions)
export(getPopularMutationCount)
export(inferGenotype)
export(inferGenotypeBayesian)
export(insertPolymorphisms)
export(plotGenotype)
export(plotGenotypeConfidence)
export(plotNovel)
export(readIgFasta)
export(reassignAlleles)
export(selectNovel)
export(sortAlleles)
export(subsampleDb)
export(updateAlleleNames)
export(writeFasta)
import(ggplot2)
importFrom(alakazam,
  DNA_COLORS,
  checkColumns,
  getAllele,
  getFamily,
  getGene,
  getLocus,
  translateDNA
)
importFrom(doParallel,registerDoParallel)
importFrom(dplyr,
  "%>%",
  arrange,
  as_data_frame,
  bind_cols,
  bind_rows,
  combine,
  data_frame,
  desc,
  distinct,
  do,
  filter,
  glimpse,
  group_by,
  group_indices,
  inner_join,
  mutate,
  n,
  pull,
  rename,
  select,
  slice,
  summarise,
  transmute,
  ungroup
)
importFrom(foreach,
  "%dopar%",
  foreach,
  registerDoSEQ
)
importFrom(graphics,plot)
importFrom(gridExtra,
  arrangeGrob,
  grid.arrange
)
importFrom(gtools,ddirichlet)
importFrom(iterators,icount)
importFrom(lazyeval,interp)
importFrom(parallel,
  clusterEvalQ,
  clusterExport,
  makeCluster,
  stopCluster
)
importFrom(rlang,
  ":=",
  .data,
  sym,
  syms
)
importFrom(stats,
  confint,
  cor,
  cov,
  ecdf,
  lm,
  mad,
  median,
  na.omit,
  sd,
  setNames
)
importFrom(stringi,
  "stri_sub<-",
  stri_detect_fixed,
  stri_length,
  stri_replace_all_regex,
  stri_sub,
  stri_trans_toupper
)
importFrom(tidyr,
  gather,
  spread,
  unnest
)
importFrom(utils,
  citation,
  head
)
