Alternatives and similar repositories for r-index

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

• dominikkempa / faster-minuter
  Wavelet tree based on a fixed block boosting technique
  ☆16Updated 4 years ago
• jltsiren / bwt-merge
  A tool for merging large BWTs
  ☆25Updated 4 years ago
• koeppl / stringsheet
  A cheatsheet for most common Stringology tasks
  ☆14Updated 4 years ago
• jermp / sshash
  📖 🧬 SSHash is a compressed, associative, exact, and weighted dictionary for k-mers.
  ☆89Updated last week
• xxsds / DYNAMIC
  Dynamic succinct/compressed data structures
  ☆112Updated last year
• bingmann / cobs
  COBS - Compact Bit-Sliced Signature Index (for Genomic k-Mer Data or q-Grams)
  ☆86Updated last year
• 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)
  ☆54Updated last year
• lh3 / ropebwt2
  Incremental construction of FM-index for DNA sequences
  ☆72Updated last year
• ddiazdom / grlBWT
  Efficient construction of the BWT using string compression
  ☆20Updated 5 months ago
• itomomoti / OnlineRlbwt
  Online construction of run-length BWT (RLBWT) and r-index. Plus, online LZ77 parsing based on RLBWT.
  ☆14Updated 7 years ago
• mpetri / FM-Index
  FM-Index full-text index implementation using RRR Wavelet trees (libcds) and fast suffix sorting (libdivsufsort) including experimental r…
  ☆107Updated 10 years ago
• felipelouza / gsa-is
  Inducing enhanced suffix arrays for string collections [DCC'16, TCS 2017]
  ☆26Updated last month
• jltsiren / gcsa2
  BWT-based index for graphs
  ☆73Updated 8 months ago
• jamshed / CaPS-SA
  Cache-friendly, Parallel, and Samplesort-based Constructor for Suffix Arrays and LCP Arrays
  ☆16Updated 4 months ago
• davidecenzato / PFP-eBWT
  Implementation of eBWT using Prefix-free parse (PFP)
  ☆14Updated 4 months ago
• dynatrace-research / set-sketch-paper
  SetSketch: Filling the Gap between MinHash and HyperLogLog
  ☆48Updated 4 years ago
• 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 8 months ago
• dnbaker / sketch
  C++ Implementations of sketch data structures with SIMD Parallelism, including Python bindings
  ☆155Updated last year
• splatlab / mantis
  Mantis: A Fast, Small, and Exact Large-Scale Sequence-Search Index
  ☆82Updated last year
• jts / dbgfm
  FM-index representation of a de Bruijn graph
  ☆27Updated 8 years ago
• nicolaprezza / BWTIL
  BWT Text Indexing Library: a set of tools to work with BWT-based text indexes
  ☆25Updated 3 years ago
• xxsds / sdsl-lite
  Succinct Data Structure Library 3.0
  ☆96Updated 2 months ago
• arun-sub / bwa-mem2
  Building upon BWA-MEM2, this repository includes performance improvements to the seeding and mate-rescue steps.
  ☆13Updated 4 years ago
• vicLeva / bqf
  Implementation of a Backpack Quotient Filter
  ☆13Updated 4 months ago
• oertl / probminhash
  ProbMinHash – A Class of Locality-Sensitive Hash Algorithms for the (Probability) Jaccard Similarity
  ☆44Updated 5 years ago
• refresh-bio / RADULS
  Ultra fast MSD radix sorter
  ☆10Updated 5 years ago
• jermp / lphash
  Fast and compact locality-preserving minimal perfect hashing for k-mer sets.
  ☆43Updated last year
• brc7 / DiversitySampling
  ☆10Updated 3 years ago