Alternatives and similar repositories for r-index:

Users that are interested in r-index are comparing it to the libraries listed below

• jltsiren / bwt-merge
  A tool for merging large BWTs
  ☆26Updated 4 years ago
• dominikkempa / faster-minuter
  Wavelet tree based on a fixed block boosting technique
  ☆16Updated 3 years ago
• koeppl / stringsheet
  A cheatsheet for most common Stringology tasks
  ☆15Updated 3 years ago
• xxsds / DYNAMIC
  Dynamic succinct/compressed data structures
  ☆112Updated 10 months ago
• bingmann / cobs
  COBS - Compact Bit-Sliced Signature Index (for Genomic k-Mer Data or q-Grams)
  ☆84Updated last year
• drnatebrown / r-index-f
  R-Index-F Library for Pattern Matching
  ☆13Updated 7 months ago
• jltsiren / gcsa2
  BWT-based index for graphs
  ☆71Updated last week
• splatlab / mantis
  Mantis: A Fast, Small, and Exact Large-Scale Sequence-Search Index
  ☆81Updated last year
• jltsiren / relative-fm
  Relative data structures based on the BWT
  ☆12Updated 6 years ago
• felipelouza / gsa-is
  Inducing enhanced suffix arrays for string collections [DCC'16, TCS 2017]
  ☆26Updated last year
• cartoonist / kseqpp
  Fast FASTA/Q parser and writer (C++ re-implementation of kseq library)
  ☆47Updated last year
• felipelouza / gsufsort
  gsufsort: building suffix arrays, LCP-arrays and BWTs for string collections [AMB 2020]
  ☆27Updated last month
• itomomoti / OnlineRlbwt
  Online construction of run-length BWT (RLBWT) and r-index. Plus, online LZ77 parsing based on RLBWT.
  ☆15Updated 6 years ago
• jermp / lphash
  Fast and compact locality-preserving minimal perfect hashing for k-mer sets.
  ☆43Updated last year
• nicolaprezza / BWTIL
  BWT Text Indexing Library: a set of tools to work with BWT-based text indexes
  ☆25Updated 2 years ago
• ekg / drawbwt
  vector illustrations of BWT based searching on small strings
  ☆16Updated 5 years ago
• mpetri / FM-Index
  FM-Index full-text index implementation using RRR Wavelet trees (libcds) and fast suffix sorting (libdivsufsort) including experimental r…
  ☆105Updated 10 years ago
• vicLeva / bqf
  Implementation of a Backpack Quotient Filter
  ☆11Updated 8 months ago
• jermp / sshash
  A compressed, associative, exact, and weighted dictionary for k-mers.
  ☆84Updated 5 months ago
• jts / dbgfm
  FM-index representation of a de Bruijn graph
  ☆27Updated 7 years ago
• xxsds / sdsl-lite
  Succinct Data Structure Library 3.0
  ☆94Updated 6 months ago
• gmarcais / compact_vector
  Bit packed vector of integral values
  ☆27Updated last month
• mohsenzakeri / Movi
  Fast and cache-efficient full-text pangenome index
  ☆27Updated 2 weeks ago
• TravisWheelerLab / AvxWindowFmIndex
  A fast, AVX2 and ARM Neon accelerated FM index library
  ☆31Updated 3 months ago
• lh3 / ropebwt2
  Incremental construction of FM-index for DNA sequences
  ☆70Updated 9 months ago
• arun-sub / bwa-mem2
  Building upon BWA-MEM2, this repository includes performance improvements to the seeding and mate-rescue steps.
  ☆13Updated 3 years ago
• ekg / succinct-graph
  compressed, queryable variation graphs
  ☆11Updated 9 years ago
• dynatrace-research / set-sketch-paper
  SetSketch: Filling the Gap between MinHash and HyperLogLog
  ☆49Updated 3 years ago
• rob-p / FQFeeder
  Self-contained, multi-threaded fasta/q parser
  ☆43Updated 5 months ago
• PASSIONLab / BELLA
  BELLA: a Computationally-Efficient and Highly-Accurate Long-Read to Long-Read Aligner and Overlapper
  ☆49Updated 2 years ago