Alternatives and similar repositories for SBWT

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

• RagnarGrootKoerkamp / minimizers
  Reference implementations of minimizer schemes to go with the mod-minimizers paper.
  ☆26Updated 5 months ago
• jermp / fulgor
  ⚡️ 🧬 Fulgor is a fast and space-efficient colored de Bruijn graph index.
  ☆55Updated last week
• mohsenzakeri / Movi
  Fast and cache-efficient full-text pangenome index
  ☆29Updated this week
• maxrossi91 / moni
  MONI: A Pangenomic Index for Finding MEMs
  ☆37Updated 6 months ago
• lh3 / miniwfa
  A reimplementation of the WaveFront Alignment algorithm at low memory
  ☆49Updated last year
• Kmer-File-Format / kff-reference
  Contains the description of a file format to store kmers and associated values
  ☆33Updated 3 years ago
• Daniel-Liu-c0deb0t / dlb-kmer-sampling
  Optimal distance lower bound k-mer sampling.
  ☆12Updated last year
• algbio / themisto
  Space-efficient pseudoalignment with a colored de Bruijn graph
  ☆52Updated 7 months ago
• rchikhi / rust-seq2kminmers
  Iterate k-min-mers from a DNA sequence in Rust
  ☆13Updated last year
• rob-p / BooM
  A hash map using the BooPHF perfect hash function
  ☆13Updated 9 years ago
• jeizenga / wfalm
  Refinements of the WFA alignment algorithm with better complexity
  ☆26Updated 3 years ago
• mkirsche / sapling
  SAPLING: Suffix Array Piecewise Linear INdex for Genomics
  ☆25Updated 5 years ago
• chfi / gfainject
  ☆17Updated 2 years ago
• langmead-lab / vargas
  ☆24Updated last month
• richarddurbin / modimizer
  a toolset for fast DNA read set matching and assembly using a new type of reduced kmer
  ☆37Updated 4 years ago
• jltsiren / gbwt-rs
  GBWT in Rust
  ☆42Updated 6 months ago
• prophyle / prophasm
  ProphAsm – a rapid computation of simplitigs directly from k-mer sets
  ☆25Updated 2 years ago
• dnbaker / dashing2
  Dashing 2 is a fast toolkit for k-mer and minimizer encoding, sketching, comparison, and indexing.
  ☆66Updated last year
• cschin / wavefront-aln
  A "Navie" Implementation of the Wavefront Algorithm For Sequence Alignment with Gap-Affine Scoring
  ☆14Updated 2 years ago
• OndrejSladky / fmsi
  FMSI is a highly memory efficient exact k-mer set index based on masked superstrings and the masked Burrows-Wheeler transform
  ☆20Updated 2 months ago
• Kmer-File-Format / kff-tools
  ☆16Updated 2 years ago
• ZekunYin / RabbitMash
  RabbitMash: an efficient highly optimized implementation of Mash.
  ☆20Updated last year
• biointec / browniealigner
  Alignment algorithm for short Illumina reads to a de Bruijn graph
  ☆17Updated 6 years ago
• lh3 / lv89
  C implementation of the Landau-Vishkin algorithm
  ☆35Updated 3 years ago
• imartayan / CBL
  A Rust library providing fully dynamic sets of k-mers with high locality
  ☆46Updated last year
• marschall-lab / gaftools
  General purpose utility related to GAF files
  ☆29Updated last month
• ddiazdom / lcg
  Efficient, parallel compression for terabyte-scale data
  ☆48Updated 2 weeks ago
• rob-p / FQFeeder
  Self-contained, multi-threaded fasta/q parser
  ☆48Updated last year
• IndexThePlanet / LoganSearch
  A k-mer search engine for all Sequence Read Archive public accessions
  ☆32Updated 11 months ago
• medvedevgroup / UST
  ☆24Updated 4 years ago