Alternatives and similar repositories for gsa-is

Users that are interested in gsa-is are comparing it to the libraries listed below

• drnatebrown / r-index-f
  R-Index-F Library for Pattern Matching
  ☆12Updated last year
• cartoonist / kseqpp
  Fast FASTA/Q parser and writer (C++ re-implementation of kseq library)
  ☆55Updated last year
• ekg / drawbwt
  vector illustrations of BWT based searching on small strings
  ☆16Updated 6 years ago
• felipelouza / gsufsort
  gsufsort: building suffix arrays, LCP-arrays and BWTs for string collections [AMB 2020]
  ☆28Updated 9 months ago
• koeppl / stringsheet
  A cheatsheet for most common Stringology tasks
  ☆14Updated 4 years ago
• ddiazdom / grlBWT
  Efficient construction of the BWT using string compression
  ☆20Updated 6 months ago
• jamshed / CaPS-SA
  Cache-friendly, Parallel, and Samplesort-based Constructor for Suffix Arrays and LCP Arrays
  ☆17Updated 5 months ago
• Kmer-File-Format / kff-tools
  ☆16Updated 2 years ago
• jltsiren / bwt-merge
  A tool for merging large BWTs
  ☆25Updated 5 years ago
• ocxtal / dozeu
  SIMD-parallel BLAST X-drop DP on sequence graphs
  ☆24Updated last year
• mohsenzakeri / Movi
  Fast, Cache-Efficient, and Scalable Queries on Pangenomes
  ☆34Updated 3 weeks ago
• nicolaprezza / r-index
  An optimal space run-length Burrows-Wheeler transform full-text index
  ☆65Updated 2 years ago
• lh3 / miniwfa
  A reimplementation of the WaveFront Alignment algorithm at low memory
  ☆50Updated last year
• rob-p / BooM
  A hash map using the BooPHF perfect hash function
  ☆13Updated 9 years ago
• RagnarGrootKoerkamp / minimizers
  Reference implementations of minimizer schemes to go with the mod-minimizers paper.
  ☆27Updated 7 months ago
• PASSIONLab / BELLA
  BELLA: a Computationally-Efficient and Highly-Accurate Long-Read to Long-Read Aligner and Overlapper
  ☆52Updated 3 years ago
• jermp / lphash
  Fast and compact locality-preserving minimal perfect hashing for k-mer sets.
  ☆43Updated 2 years ago
• maxrossi91 / moni
  MONI: A Pangenomic Index for Finding MEMs
  ☆37Updated 8 months ago
• jermp / fulgor
  ⚡️ 🧬 Fulgor is a fast and space-efficient colored de Bruijn graph index.
  ☆57Updated last week
• tlemane / kmtricks
  modular k-mer count matrix and Bloom filter construction for large read collections
  ☆85Updated 3 months ago
• jermp / sshash
  📖 🧬 SSHash is a compressed, associative, exact, and weighted dictionary for k-mers.
  ☆89Updated last week
• ocxtal / libgaba
  Adaptive semi-global banded alignment on string graphs
  ☆67Updated 7 years ago
• jeizenga / wfalm
  Refinements of the WFA alignment algorithm with better complexity
  ☆26Updated 3 years ago
• algbio / ggcat
  Compacted and colored de Bruijn graph construction and querying
  ☆85Updated this week
• ksahlin / strobemers
  A repository for generating strobemers and evalaution
  ☆79Updated last year
• vicLeva / bqf
  Implementation of a Backpack Quotient Filter
  ☆13Updated 4 months ago
• mkirsche / sapling
  SAPLING: Suffix Array Piecewise Linear INdex for Genomics
  ☆25Updated 5 years ago
• rob-p / FQFeeder
  Self-contained, multi-threaded fasta/q parser
  ☆48Updated last year
• medvedevgroup / UST
  ☆24Updated 4 years ago
• medvedevgroup / TwoPaCo
  A fast constructor of the compressed de Bruijn graph from many genomes
  ☆42Updated last week