Alternatives and similar repositories for minimizers

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

• jermp / fulgor
  ⚡️ 🧬 Fulgor is a fast and space-efficient colored de Bruijn graph index.
  ☆57Updated last week
• rust-seq / minimizer-iter
  Iterate over minimizers of a DNA sequence
  ☆31Updated last year
• broadinstitute / poasta
  Fast and exact gap-affine partial order alignment
  ☆56Updated 3 weeks ago
• Kmer-File-Format / kff-reference
  Contains the description of a file format to store kmers and associated values
  ☆34Updated 3 years ago
• pairwise-alignment / pa-bench
  Benchmarking pairwise aligners
  ☆36Updated 9 months ago
• lh3 / miniwfa
  A reimplementation of the WaveFront Alignment algorithm at low memory
  ☆50Updated last year
• algbio / themisto
  Space-efficient pseudoalignment with a colored de Bruijn graph
  ☆52Updated 8 months ago
• shenwei356 / wfa
  Wavefront alignment algorithm (WFA) in Golang
  ☆32Updated 4 months ago
• rchikhi / rust-alignbench
  Pairwise nucleotide alignment benchmark of Rust bindings
  ☆30Updated 2 years ago
• kcleal / pywfa
  Python wrapper for wavefront alignment using WFA2-lib
  ☆37Updated last year
• cschin / wavefront-aln
  A "Navie" Implementation of the Wavefront Algorithm For Sequence Alignment with Gap-Affine Scoring
  ☆14Updated 2 years ago
• richarddurbin / modimizer
  a toolset for fast DNA read set matching and assembly using a new type of reduced kmer
  ☆37Updated 4 years ago
• codialab / GFAffix
  GFAffix identifies walk-preserving shared affixes in variation graphs and collapses them into a non-redundant graph structure.
  ☆36Updated 6 months ago
• mlin / gfabase
  GFA insert into GenomicSQLite
  ☆49Updated 4 years ago
• AlgoLab / RecGraph
  Optimal sequence-to-graph alignment with recombinations
  ☆38Updated 4 months ago
• maxrossi91 / moni
  MONI: A Pangenomic Index for Finding MEMs
  ☆37Updated 8 months ago
• jeizenga / wfalm
  Refinements of the WFA alignment algorithm with better complexity
  ☆26Updated 3 years ago
• pangenome / gafpack
  convert variation graph alignments to coverage maps over nodes
  ☆26Updated this week
• lh3 / pubLRasm
  ☆17Updated 4 years ago
• imartayan / CBL
  A Rust library providing fully dynamic sets of k-mers with high locality
  ☆46Updated last year
• mohsenzakeri / Movi
  Fast, Cache-Efficient, and Scalable Queries on Pangenomes
  ☆34Updated 3 weeks ago
• algbio / SBWT
  Code for the paper Succinct k-mer Set Representations Using Subset Rank Queries on the Spectral Burrows-Wheeler Transform (SBWT)
  ☆24Updated 8 months ago
• biointec / browniealigner
  Alignment algorithm for short Illumina reads to a de Bruijn graph
  ☆17Updated 6 years ago
• natir / rustyread
  A long read simulator based on badread idea
  ☆22Updated 3 years ago
• COMBINE-lab / piscem
  Rust wrapper for the next generation (still currently in C++)
  ☆28Updated 4 months ago
• sourmash-bio / sourmash_plugin_branchwater
  fast, multithreaded sourmash operations: search, compare, and gather.
  ☆25Updated last week
• lh3 / lv89
  C implementation of the Landau-Vishkin algorithm
  ☆35Updated 3 years ago
• at-cg / PanAligner
  Long read aligner for cyclic and acyclic pangenome graphs
  ☆40Updated last year
• jltsiren / gbwt-rs
  GBWT in Rust
  ☆43Updated 8 months ago
• OndrejSladky / fmsi
  FMSI is a highly memory efficient exact k-mer set index based on masked superstrings and the masked Burrows-Wheeler transform
  ☆21Updated 2 weeks ago