ExaScience / elprep-bench

Related projects ⓘ

Alternatives and complementary repositories for elprep-bench

• mklarqvist / libflagstats
  Efficient C functions to compute the summary statistics (flagstats) for sequencing read sets.
  ☆15Updated 4 years ago
• ocxtal / rbread
  Header-only, gzread-like reader for gzip, bz2, and xz.
  ☆12Updated 6 years ago
• lh3 / rmaxcut
  An experimental tool to find approximate max-cuts in a large graph
  ☆11Updated 3 years ago
• MauricioCarneiro / PairHMM
  Optimization of a Haplotype PairHMM class for GPU processing
  ☆24Updated 7 years ago
• Malfoy / Miekki
  Minhash Index Extended to Knead Kmer Intersection
  ☆11Updated 4 years ago
• RUSH-LAB / RAMBO
  ☆19Updated 4 years ago
• bingmann / cobs
  COBS - Compact Bit-Sliced Signature Index (for Genomic k-Mer Data or q-Grams)
  ☆83Updated 9 months ago
• jltsiren / bwt-merge
  A tool for merging large BWTs
  ☆26Updated 3 years ago
• kloetzl / libdna
  ♥ Essential Functions for DNA Manipulation
  ☆20Updated 4 months ago
• vgteam / gssw
  efficient alignment of strings to partially ordered string graphs
  ☆33Updated 2 years ago
• kdm9 / hail
  Hail: extract lines from a file, a la `head -n x | tail -n y`
  ☆8Updated 4 years ago
• dib-lab / MQF
  ☆12Updated last year
• jts / dbgfm
  FM-index representation of a de Bruijn graph
  ☆27Updated 7 years ago
• seqan / needle
  A fast and space-efficient pre-filter for estimating the quantification of very large collections of nucleotide sequences
  ☆14Updated this week
• lgautier / mashing-pumpkins
  Minhash and maxhash library in Python, combining flexibility, expressivity, and performance.
  ☆21Updated 2 months ago
• atks / Rmath
  Statistical Distributions from R
  ☆12Updated 10 years ago
• richarddurbin / modimizer
  a toolset for fast DNA read set matching and assembly using a new type of reduced kmer
  ☆37Updated 3 years ago
• edawson / mkmh
  Generate kmers/minimizers/hashes/MinHash signatures, including with multiple kmer sizes.
  ☆24Updated 3 years ago
• Kingsford-Group / miniception
  ☆12Updated 4 years ago
• rvaser / bioparser
  C++ library for parsing several formats in bioinformatics
  ☆9Updated last year
• ocxtal / dozeu
  SIMD-parallel BLAST X-drop DP on sequence graphs
  ☆24Updated 5 months ago
• vgteam / xg-old
  succinct labeled graphs with collections and paths
  ☆15Updated 5 years ago
• medvedevgroup / UST
  ☆25Updated 3 years ago
• edawson / svaha
  Convert structural variants to sequence graphs [ VCF + FASTA ---> GFA ]
  ☆11Updated 8 months ago
• arq5x / piledriver
  Basic, no assumptions, multi-pileup
  ☆24Updated 10 years ago
• VGP / vgp-tools
  ☆28Updated last year
• nanoporetech / minimappy
  Python bindings to minimap2
  ☆16Updated 7 years ago
• noporpoise / string_buffer
  libstrbuf: A powerful string library for C
  ☆17Updated 8 years ago
• nicolaprezza / BWTIL
  BWT Text Indexing Library: a set of tools to work with BWT-based text indexes
  ☆25Updated 2 years ago