Pangenomics Benchmark & Workbench

• bifrost
  Bifrost: Highly parallel construction and indexing of colored and compacted de Bruijn graphs
• BIGSI
  BItsliced Genomic Signature Index - Efficient indexing and search in very large collections of WGS data
• BloomFilterTrie
  An alignment-free, reference-free and incremental data structure for colored de Bruijn graph with application to pan-genome indexing.
• bloomtree
  No description provided.
• bloomtree-allsome
  Sequence Bloom Trees with All/Some split
• cobs
  COBS - Compact Bit-Sliced Signature Index (for Genomic k-Mer Data or q-Grams)
• cortex
  reference free variant assembly
• cuttlefish
  Building the compacted de Bruijn graph efficiently from references or reads.
• gatb-core
  Core library of the Genome Analysis Toolbox with de-Bruijn graph
• HowDeSBT
  Sequence Bloom Tree, supporting determined/how split filters
• kcollections
  An efficient kmer data structure for genomic applications.
• kmtricks
  modular k-mer count matrix and Bloom filter construction for large read collections
• mantis
  Mantis: A Fast, Small, and Exact Large-Scale Sequence-Search Index
• mccortex
  De novo genome assembly and multisample variant calling
• rainbowfish
  A succinct colored dBG representation
• RAMBO
  No description provided.
• raptor
  A fast and space-efficient pre-filter for querying very large collections of nucleotide sequences.
• REINDEER
  REINDEER REad Index for abuNDancE quERy
• SeqOthello
  SeqOthello supports fast coverage query and containment query.
• splitsbt
  No description provided.
• themisto
  Space-efficient pseudoalignment with a colored de Bruijn graph
• VARI
  Cosmo is a fast, low-memory DNA assembler using a Succinct (variable order) de Bruijn Graph.