Alternatives and similar repositories for FM-Index:

Users that are interested in FM-Index are comparing it to the libraries listed below

• nicolaprezza / BWTIL
  BWT Text Indexing Library: a set of tools to work with BWT-based text indexes
  ☆25Updated 2 years ago
• mpetri / FM-Index
  FM-Index full-text index implementation using RRR Wavelet trees (libcds) and fast suffix sorting (libdivsufsort) including experimental r…
  ☆104Updated 10 years ago
• Poyias / mBonsai
  Compact Tree Representation
  ☆16Updated 7 years ago
• bingmann / cobs
  COBS - Compact Bit-Sliced Signature Index (for Genomic k-Mer Data or q-Grams)
  ☆84Updated last year
• ot / emphf
  An efficient external-memory algorithm for the construction of minimal perfect hash functions
  ☆63Updated 8 months ago
• itomomoti / OnlineRlbwt
  Online construction of run-length BWT (RLBWT) and r-index. Plus, online LZ77 parsing based on RLBWT.
  ☆15Updated 6 years ago
• ekg / mmmulti
  memory mapped multimap, multiset, and implicit interval tree based on an in-place parallel sort
  ☆27Updated 4 years ago
• jltsiren / bwt-merge
  A tool for merging large BWTs
  ☆26Updated 4 years ago
• nicolaprezza / r-index
  An optimal space run-length Burrows-Wheeler transform full-text index
  ☆62Updated last year
• jts / dbgfm
  FM-index representation of a de Bruijn graph
  ☆27Updated 7 years ago
• xxsds / DYNAMIC
  Dynamic succinct/compressed data structures
  ☆112Updated 9 months ago
• gmarcais / compact_vector
  Bit packed vector of integral values
  ☆27Updated 3 weeks ago
• dominikkempa / faster-minuter
  Wavelet tree based on a fixed block boosting technique
  ☆16Updated 3 years ago
• GuillaumeHolley / BloomFilterTrie
  An alignment-free, reference-free and incremental data structure for colored de Bruijn graph with application to pan-genome indexing.
  ☆43Updated 3 years ago
• nicolaprezza / lz-rlbwt
  Run-length compressed BWT with LZ77 sampled suffix array
  ☆10Updated 2 years ago
• eriksjolund / diagonalsw
  C/C++ implementation of the Smith-Waterman algorithm by using SIMD operations (e.g SSE4.1)
  ☆23Updated 8 years ago
• jltsiren / relative-fm
  Relative data structures based on the BWT
  ☆12Updated 6 years ago
• drnatebrown / r-index-f
  R-Index-F Library for Pattern Matching
  ☆13Updated 6 months ago
• fclaude / libcds2
  Compact Data Structures Library
  ☆98Updated 2 years ago
• jermp / sshash
  A compressed, associative, exact, and weighted dictionary for k-mers.
  ☆84Updated 4 months ago
• patflick / psac
  Parallel Suffix Array, LCP Array, and Suffix Tree Construction
  ☆49Updated 5 years ago
• jermp / lphash
  Fast and compact locality-preserving minimal perfect hashing for k-mer sets.
  ☆43Updated last year
• ocxtal / rbread
  Header-only, gzread-like reader for gzip, bz2, and xz.
  ☆12Updated 6 years ago
• jltsiren / gcsa2
  BWT-based index for graphs
  ☆70Updated 3 months ago
• tudocomp / tudocomp
  TU DOrtmund lossless COMPression framework
  ☆17Updated 5 months ago
• vgteam / gssw
  efficient alignment of strings to partially ordered string graphs
  ☆33Updated 3 years ago
• rizkg / BBHash
  Bloom-filter based minimal perfect hash function library
  ☆254Updated last year
• ekg / succinct-graph
  compressed, queryable variation graphs
  ☆11Updated 9 years ago
• medvedevgroup / TwoPaCo
  A fast constructor of the compressed de Bruijn graph from many genomes
  ☆40Updated 3 weeks ago
• cartoonist / kseqpp
  Fast FASTA/Q parser and writer (C++ re-implementation of kseq library)
  ☆47Updated 11 months ago