Alternatives and similar repositories for TwoPaCo

Users that are interested in TwoPaCo are comparing it to the libraries listed below

• cosmo-team / cosmo
  Cosmo is a fast, low-memory DNA assembler using a Succinct (variable order) de Bruijn Graph.
  ☆53Updated last year
• richarddurbin / modimizer
  a toolset for fast DNA read set matching and assembly using a new type of reduced kmer
  ☆37Updated 4 years ago
• karel-brinda / ococo
  Ococo: the first online variant and consensus caller. Call genomic consensus directly from an unsorted SAM/BAM stream.
  ☆46Updated 6 years ago
• edawson / rkmh
  Classify sequencing reads using MinHash.
  ☆48Updated 5 years ago
• algbio / themisto
  Space-efficient pseudoalignment with a colored de Bruijn graph
  ☆52Updated 9 months ago
• VGP / vgp-tools
  ☆28Updated 8 months ago
• bkehr / popins
  Population-scale detection of novel sequence insertions
  ☆27Updated 3 years ago
• HongzheGuo / deBGA
  de Bruijn Graph-based read aligner
  ☆34Updated 7 years ago
• vgteam / gssw
  efficient alignment of strings to partially ordered string graphs
  ☆33Updated 3 years ago
• Kmer-File-Format / kff-reference
  Contains the description of a file format to store kmers and associated values
  ☆34Updated 3 years ago
• ParBLiSS / PaSGAL
  Parallel Sequence to Graph Alignment
  ☆36Updated 3 years ago
• tlemane / kmindex
  Index kmtricks bf matrices
  ☆46Updated 2 weeks ago
• kamimrcht / REINDEER
  REINDEER REad Index for abuNDancE quERy
  ☆56Updated 5 months ago
• kuleshov / architect
  Scaffolding genomes using synthetic long read clouds
  ☆20Updated 9 years ago
• lh3 / lv89
  C implementation of the Landau-Vishkin algorithm
  ☆35Updated 3 years ago
• ITBE-Lab / MA
  The Modular Aligner and The Modular SV Caller
  ☆46Updated 2 years ago
• dnbaker / dashing2
  Dashing 2 is a fast toolkit for k-mer and minimizer encoding, sketching, comparison, and indexing.
  ☆70Updated last year
• isovic / minialign
  Minimalistic aligner which uses Minimap for input mapping locations and Edlib for fast bitvector alignment.
  ☆11Updated 8 years ago
• rcedgar / urmap
  URMAP ultra-fast read mapper
  ☆38Updated 5 years ago
• rob-p / BooM
  A hash map using the BooPHF perfect hash function
  ☆13Updated 9 years ago
• ddiazdom / lcg
  Efficient, parallel compression for terabyte-scale data
  ☆55Updated 3 months ago
• biointec / browniealigner
  Alignment algorithm for short Illumina reads to a de Bruijn graph
  ☆17Updated 6 years ago
• langmead-lab / vargas
  ☆24Updated 4 months ago
• jermp / fulgor
  ⚡️ 🧬 Fulgor is a fast and space-efficient colored de Bruijn graph index.
  ☆59Updated last week
• Malfoy / Blight
  De Bruijn graph representation in low memory
  ☆35Updated last year
• gregorykucherov / spaced-seeds-for-metagenomics
  ☆13Updated 9 years ago
• medvedevgroup / UST
  ☆24Updated 4 years ago
• lh3 / miniwfa
  A reimplementation of the WaveFront Alignment algorithm at low memory
  ☆50Updated last year
• broadinstitute / pyfrost
  Python bindings for Bifrost's compacted colored de Bruijn Graph with a NetworkX-compatible API
  ☆27Updated 2 years ago
• Malfoy / BGREAT
  de Bruijn Graph REAd mapping Tool
  ☆14Updated 8 years ago