vg
tools for working with variation graphs
src Directory Reference

Directories

directory  algorithms
 
directory  io
 
directory  subcommand
 
directory  unittest
 

Files

file  aligner.cpp
 
file  aligner.hpp
 
file  alignment.cpp
 
file  alignment.hpp
 
file  alignment_emitter.cpp
 
file  alignment_emitter.hpp
 
file  annotation.hpp
 
file  augment.cpp
 
file  augment.hpp
 
file  banded_global_aligner.cpp
 
file  banded_global_aligner.hpp
 
file  benchmark.cpp
 
file  benchmark.hpp
 
file  bin2ascii.h
 
file  build_index.cpp
 
file  build_index.hpp
 
file  cactus.cpp
 
file  cactus.hpp
 
file  cactus_snarl_finder.cpp
 
file  cactus_snarl_finder.hpp
 
file  chunker.cpp
 
file  chunker.hpp
 
file  cluster.cpp
 
file  cluster.hpp
 
file  colors.hpp
 
file  constructor.cpp
 
file  constructor.hpp
 
file  convert.hpp
 
file  crash.cpp
 
file  crash.hpp
 
file  dagified_graph.cpp
 
file  dagified_graph.hpp
 
file  deconstructor.cpp
 
file  deconstructor.hpp
 
file  dozeu_interface.cpp
 
file  dozeu_interface.hpp
 
file  dozeu_pinning_overlay.cpp
 
file  dozeu_pinning_overlay.hpp
 
file  edit.cpp
 
file  edit.hpp
 
file  endianness.hpp
 
file  entropy.cpp
 
file  entropy.hpp
 
file  extra_node_graph.cpp
 
file  extra_node_graph.hpp
 
file  feature_set.cpp
 
file  feature_set.hpp
 
file  filter.cpp
 
file  filter.hpp
 
file  flow_sort.cpp
 
file  flow_sort.hpp
 
file  funnel.cpp
 
file  funnel.hpp
 
file  gafkluge.hpp
 
file  gapless_extender.cpp
 
file  gapless_extender.hpp
 
file  gbwt_helper.cpp
 
file  gbwt_helper.hpp
 
file  genome_state.cpp
 
file  genome_state.hpp
 
file  genotypekit.cpp
 
file  genotypekit.hpp
 
file  genotyper.cpp
 
file  genotyper.hpp
 
file  gfa.cpp
 
file  gfa.hpp
 
file  gff_reader.cpp
 
file  gff_reader.hpp
 
file  graph.cpp
 
file  graph.hpp
 
file  graph_caller.cpp
 
file  graph_caller.hpp
 
file  graph_synchronizer.cpp
 
file  graph_synchronizer.hpp
 
file  handle.hpp
 
file  haplotype_extracter.cpp
 
file  haplotype_extracter.hpp
 
file  haplotype_indexer.cpp
 
file  haplotype_indexer.hpp
 
file  haplotypes.cpp
 
file  haplotypes.hpp
 
file  hash_map.hpp
 
file  homogenizer.cpp
 
file  homogenizer.hpp
 
file  identity_overlay.cpp
 
file  identity_overlay.hpp
 
file  index.cpp
 
file  index.hpp
 
file  index_manager.cpp
 
file  index_manager.hpp
 
file  indexed_vg.cpp
 
file  indexed_vg.hpp
 
file  integrated_snarl_finder.cpp
 
file  integrated_snarl_finder.hpp
 
file  json2pb.cpp
 
file  json2pb.h
 
file  kmer.cpp
 
file  kmer.hpp
 
file  main.cpp
 
file  mapper.cpp
 
file  mapper.hpp
 
file  mcmc_caller.cpp
 
file  mcmc_caller.hpp
 
file  mcmc_genotyper.cpp
 
file  mcmc_genotyper.hpp
 
file  mem.cpp
 
file  mem.hpp
 
file  memoizing_graph.cpp
 
file  memoizing_graph.hpp
 
file  memusage.cpp
 
file  memusage.hpp
 
file  min_distance.cpp
 
file  min_distance.hpp
 
file  minimizer_mapper.cpp
 
file  minimizer_mapper.hpp
 
file  msa_converter.cpp
 
file  msa_converter.hpp
 
file  multipath_alignment.cpp
 
file  multipath_alignment.hpp
 
file  multipath_alignment_emitter.cpp
 
file  multipath_alignment_emitter.hpp
 
file  multipath_alignment_graph.cpp
 
file  multipath_alignment_graph.hpp
 
file  multipath_mapper.cpp
 
file  multipath_mapper.hpp
 
file  name_mapper.cpp
 
file  name_mapper.hpp
 
file  nested_traversal_finder.cpp
 
file  nested_traversal_finder.hpp
 
file  nodeside.hpp
 
file  nodetraversal.hpp
 
file  null_masking_graph.cpp
 
file  null_masking_graph.hpp
 
file  option.cpp
 
file  option.hpp
 
file  packer.cpp
 
file  packer.hpp
 
file  path.cpp
 
file  path.hpp
 
file  path_component_index.cpp
 
file  path_component_index.hpp
 
file  path_index.cpp
 
file  path_index.hpp
 
file  path_subgraph.cpp
 
file  path_subgraph.hpp
 
file  phase_unfolder.cpp
 
file  phase_unfolder.hpp
 
file  phased_genome.cpp
 
file  phased_genome.hpp
 
file  pictographs.hpp
 
file  position.cpp
 
file  position.hpp
 
file  preflight.cpp
 
file  preflight.hpp
 
file  progressive.cpp
 
file  progressive.hpp
 
file  prune.cpp
 
file  prune.hpp
 
file  qual_adj_xdrop_aligner.cpp
 
file  rare_variant_simplifier.cpp
 
file  rare_variant_simplifier.hpp
 
file  readfilter.cpp
 
file  readfilter.hpp
 
file  region.cpp
 
file  region.hpp
 
file  region_expander.cpp
 
file  region_expander.hpp
 
file  reverse_graph.cpp
 
file  reverse_graph.hpp
 
file  sampler.cpp
 
file  sampler.hpp
 
file  scanner.cpp
 
file  scanner.hpp
 
file  seed_clusterer.cpp
 
file  seed_clusterer.hpp
 
file  small_bitset.hpp
 
file  small_snarl_simplifier.cpp
 
file  small_snarl_simplifier.hpp
 
file  snarl_caller.cpp
 
file  snarl_caller.hpp
 
file  snarls.cpp
 
file  snarls.hpp
 
file  source_sink_overlay.cpp
 
file  source_sink_overlay.hpp
 
file  split_strand_graph.cpp
 
file  split_strand_graph.hpp
 
file  srpe.cpp
 
file  srpe.hpp
 
file  ssw_aligner.cpp
 
file  ssw_aligner.hpp
 
file  statistics.cpp
 
file  statistics.hpp
 
file  stream_index.cpp
 
file  stream_index.hpp
 
file  stream_sorter.cpp
 
file  stream_sorter.hpp
 
file  subgraph.cpp
 
file  subgraph.hpp
 
file  subgraph_overlay.cpp
 
file  subgraph_overlay.hpp
 
file  surjector.cpp
 
file  surjector.hpp
 
file  swap_remove.hpp
 
file  transcriptome.cpp
 
file  transcriptome.hpp
 
file  translator.cpp
 
file  translator.hpp
 
file  traversal_finder.cpp
 
file  traversal_finder.hpp
 
file  traversal_support.cpp
 
file  traversal_support.hpp
 
file  tree_subgraph.cpp
 
file  tree_subgraph.hpp
 
file  types.hpp
 
file  utility.cpp
 
file  utility.hpp
 
file  variant_adder.cpp
 
file  variant_adder.hpp
 
file  variant_recall.cpp
 
file  variant_recall.hpp
 
file  vcf_buffer.cpp
 
file  vcf_buffer.hpp
 
file  vectorizer.cpp
 
file  vectorizer.hpp
 
file  version.cpp
 
file  version.hpp
 
file  vg.cpp
 
file  vg.hpp
 
file  vg_set.cpp
 
file  vg_set.hpp
 
file  viz.cpp
 
file  viz.hpp
 
file  wang_hash.hpp
 
file  watchdog.cpp
 
file  watchdog.hpp
 
file  xdrop_aligner.cpp