Alternatives and similar repositories for swipe

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

• medvedevgroup / TwoPaCo
  A fast constructor of the compressed de Bruijn graph from many genomes
  ☆42Updated 2 months ago
• ParBLiSS / PaSGAL
  Parallel Sequence to Graph Alignment
  ☆36Updated 3 years ago
• splatlab / squeakr
  Squeakr: An Exact and Approximate k -mer Counting System
  ☆86Updated 11 months ago
• richarddurbin / modimizer
  a toolset for fast DNA read set matching and assembly using a new type of reduced kmer
  ☆37Updated 4 years ago
• PASSIONLab / BELLA
  BELLA: a Computationally-Efficient and Highly-Accurate Long-Read to Long-Read Aligner and Overlapper
  ☆52Updated 3 years ago
• dnbaker / dashing2
  Dashing 2 is a fast toolkit for k-mer and minimizer encoding, sketching, comparison, and indexing.
  ☆70Updated last year
• HingeAssembler / HINGE
  Software accompanying "HINGE: Long-Read Assembly Achieves Optimal Repeat Resolution"
  ☆64Updated 5 years ago
• cosmo-team / cosmo
  Cosmo is a fast, low-memory DNA assembler using a Succinct (variable order) de Bruijn Graph.
  ☆53Updated last year
• isovic / raptor
  Graph-based mapping of long sequences, noisy or HiFi.
  ☆55Updated 5 years ago
• dkoslicki / CMash
  Fast and accurate set similarity estimation via containment min hash
  ☆42Updated last year
• HKU-BAL / MegaGTA
  HMM-guided metagenomic gene-targeted assembler using iterative de Bruijn graphs
  ☆18Updated 9 years ago
• lh3 / gwfa
  Proof-of-concept implementation of GWFA for sequence-to-graph alignment
  ☆56Updated last year
• jeizenga / wfalm
  Refinements of the WFA alignment algorithm with better complexity
  ☆26Updated 3 years ago
• karel-brinda / ococo
  Ococo: the first online variant and consensus caller. Call genomic consensus directly from an unsorted SAM/BAM stream.
  ☆46Updated 7 years ago
• algbio / themisto
  Space-efficient pseudoalignment with a colored de Bruijn graph
  ☆52Updated 10 months ago
• VGP / vgp-tools
  ☆28Updated 10 months ago
• Malfoy / Blight
  De Bruijn graph representation in low memory
  ☆35Updated last year
• jltsiren / gcsa2
  BWT-based index for graphs
  ☆73Updated 10 months ago
• vpc-ccg / lordfast
  Sensitive and Fast Alignment Search Tool for Long Read sequencing Data.
  ☆40Updated 6 years ago
• will-rowe / hulk
  Histosketching Using Little Kmers
  ☆56Updated 2 years ago
• pmelsted / KmerStream
  Streaming algorithm for computing kmer statistics for massive genomics datasets
  ☆54Updated 5 years ago
• lh3 / rmaxcut
  An experimental tool to find approximate max-cuts in a large graph
  ☆10Updated 4 years ago
• rcedgar / urmap
  URMAP ultra-fast read mapper
  ☆38Updated 5 years ago
• ksahlin / strobemers
  A repository for generating strobemers and evalaution
  ☆79Updated last year
• kamimrcht / REINDEER
  REINDEER REad Index for abuNDancE quERy
  ☆56Updated 7 months ago
• jltsiren / gbwt
  Substring index for paths in a graph
  ☆60Updated last week
• iqbal-lab / Mykrobe-predictor
  Antibiotic resistance predictions in minutes on a laptop
  ☆50Updated 6 years ago
• lh3 / lv89
  C implementation of the Landau-Vishkin algorithm
  ☆35Updated 3 years ago
• TravisWheelerLab / AvxWindowFmIndex
  A fast, AVX2 and ARM Neon accelerated FM index library
  ☆36Updated last year
• lh3 / sdust
  Symmetric DUST for finding low-complexity regions in DNA sequences
  ☆45Updated 6 months ago