Alternatives and similar repositories for htscodecs:

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

• jkbonfield / fqzcomp
  Fastq compression tool
  ☆15Updated 5 years ago
• ocxtal / rbread
  Header-only, gzread-like reader for gzip, bz2, and xz.
  ☆12Updated 6 years ago
• IlyaGrebnov / esa-matchfinder
  The esa-matchfinder is a C99 library for efficient Lempel-Ziv factorization using enhanced suffix array (ESA).
  ☆23Updated 2 weeks ago
• ocxtal / dozeu
  SIMD-parallel BLAST X-drop DP on sequence graphs
  ☆24Updated 10 months ago
• attractivechaos / khashl
  Generic hash table library in C
  ☆30Updated last month
• shubhamchandak94 / HARC
  Fastq compression
  ☆18Updated 5 years ago
• vgteam / gssw
  efficient alignment of strings to partially ordered string graphs
  ☆33Updated 3 years ago
• mklarqvist / libflagstats
  Efficient C functions to compute the summary statistics (flagstats) for sequencing read sets.
  ☆15Updated 5 years ago
• jermp / lphash
  Fast and compact locality-preserving minimal perfect hashing for k-mer sets.
  ☆43Updated last year
• nicolaprezza / lz-rlbwt
  Run-length compressed BWT with LZ77 sampled suffix array
  ☆10Updated 3 years ago
• medvedevgroup / TwoPaCo
  A fast constructor of the compressed de Bruijn graph from many genomes
  ☆40Updated 2 months ago
• nh13 / pbgzip
  Parallel Block GZIP
  ☆50Updated 8 years ago
• nanoporetech / vbz_compression
  VBZ compression plugin for nanopore signal data
  ☆40Updated 2 weeks ago
• nicolaprezza / r-index
  An optimal space run-length Burrows-Wheeler transform full-text index
  ☆62Updated last year
• dcjones / quip
  Compressing next-generation sequencing data with extreme prejudice.
  ☆80Updated 2 years ago
• alshai / Big-BWT
  modified from gitlab.com/manzai/Big-BWT to support fasta files
  ☆9Updated 2 months ago
• Martinsos / opal
  SIMD C/C++ library for massive optimal sequence alignment (local/SW, infix, overlap, global)
  ☆38Updated last year
• jermp / sshash
  A compressed, associative, exact, and weighted dictionary for k-mers.
  ☆84Updated 3 weeks ago
• bingmann / cobs
  COBS - Compact Bit-Sliced Signature Index (for Genomic k-Mer Data or q-Grams)
  ☆84Updated last year
• jltsiren / bwt-merge
  A tool for merging large BWTs
  ☆26Updated 4 years ago
• TravisWheelerLab / AvxWindowFmIndex
  A fast, AVX2 and ARM Neon accelerated FM index library
  ☆32Updated 4 months ago
• Piezoid / pugz
  Truly parallel gzip decompression
  ☆125Updated 5 years ago
• jkbonfield / rans_static
  rANS coder (derived from https://github.com/rygorous/ryg_rans)
  ☆83Updated 3 years ago
• guilledufort / EnanoFASTQ
  A FASTQ lossless compression algorithm especially designed for nanopore sequencing FASTQ files.
  ☆10Updated 4 years ago
• refresh-bio / fqsqueezer
  FQSqueezer - FASTQ compressor based on k-mer statistics
  ☆16Updated last year
• gui11aume / mmp
  MEM mapper prototype
  ☆13Updated 4 years ago
• IlyaGrebnov / libsais
  libsais is a library for linear time suffix array, longest common prefix array and burrows wheeler transform construction based on induce…
  ☆204Updated 2 weeks ago
• cartoonist / kseqpp
  Fast FASTA/Q parser and writer (C++ re-implementation of kseq library)
  ☆47Updated last year
• mlin / iitii
  Implicit Interval Tree with Interpolation Index
  ☆41Updated 2 years ago
• jeizenga / wfalm
  Refinements of the WFA alignment algorithm with better complexity
  ☆26Updated 3 years ago