Alternatives and similar repositories for kmerind

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

• HKU-BAL / MegaGTA
  HMM-guided metagenomic gene-targeted assembler using iterative de Bruijn graphs
  ☆18Updated 9 years ago
• vgteam / gssw
  efficient alignment of strings to partially ordered string graphs
  ☆33Updated 4 years ago
• medvedevgroup / TwoPaCo
  A fast constructor of the compressed de Bruijn graph from many genomes
  ☆42Updated 2 months ago
• rob-p / FQFeeder
  Self-contained, multi-threaded fasta/q parser
  ☆48Updated 3 weeks ago
• will-rowe / genome-sketching
  online notebooks for a review of genome sketching
  ☆60Updated 6 years ago
• ocxtal / libgaba
  Adaptive semi-global banded alignment on string graphs
  ☆66Updated 7 years ago
• splatlab / squeakr
  Squeakr: An Exact and Approximate k -mer Counting System
  ☆86Updated 11 months ago
• GATB / gatb-core
  Core library of the Genome Analysis Toolbox with de-Bruijn graph
  ☆65Updated last year
• lh3 / lv89
  C implementation of the Landau-Vishkin algorithm
  ☆35Updated 3 years ago
• jltsiren / gcsa2
  BWT-based index for graphs
  ☆73Updated 10 months ago
• pmelsted / BFCounter
  ☆24Updated 8 years ago
• bcgsc / ntCard
  Estimating k-mer coverage histogram of genomics data
  ☆77Updated 2 years ago
• jstjohn / SimSeq
  An illumina paired-end and mate-pair short read simulator. This project attempts to model as many of the quirks that exist in Illumina da…
  ☆68Updated 11 years ago
• lh3 / gwfa
  Proof-of-concept implementation of GWFA for sequence-to-graph alignment
  ☆56Updated last year
• lh3 / pre-pe
  Preprocessing paired-end reads produced with experiment-specific protocols
  ☆32Updated 7 years ago
• marbl / VALET
  A pipeline for detecting mis-assemblies in metagenomic assemblies.
  ☆14Updated 8 years ago
• mateidavid / fast5
  A C++ header-only library for reading Oxford Nanopore Fast5 files
  ☆53Updated 3 years ago
• COMBINE-lab / cuttlefish
  Building the compacted de Bruijn graph efficiently from references or reads.
  ☆92Updated this week
• jltsiren / gbwt
  Substring index for paths in a graph
  ☆60Updated last week
• lh3 / fermi-lite
  Standalone C library for assembling Illumina short reads in small regions
  ☆72Updated 3 years ago
• PASSIONLab / BELLA
  BELLA: a Computationally-Efficient and Highly-Accurate Long-Read to Long-Read Aligner and Overlapper
  ☆52Updated 3 years ago
• vpc-ccg / lordfast
  Sensitive and Fast Alignment Search Tool for Long Read sequencing Data.
  ☆40Updated 6 years ago
• cosmo-team / cosmo
  Cosmo is a fast, low-memory DNA assembler using a Succinct (variable order) de Bruijn Graph.
  ☆53Updated last year
• pfaucon / PBSIM-PacBio-Simulator
  This is an updated mirror of the original PacBio Read Simulator
  ☆39Updated 7 years ago
• DixianZhu / deBWT
  A efficient method to construct BWT index of a given DNA sequence, especially useful for gigantic and high similar genome.
  ☆15Updated 9 years ago
• COMBINE-lab / pufferfish
  An efficient index for the colored, compacted, de Bruijn graph
  ☆111Updated last year
• bcgsc / ntHash
  Fast hash function for DNA/RNA sequences
  ☆106Updated last year
• mkirsche / sapling
  SAPLING: Suffix Array Piecewise Linear INdex for Genomics
  ☆25Updated 5 years ago
• lh3 / ksw2
  Global alignment and alignment extension
  ☆141Updated 2 years ago
• statgen / libStatGen
  Useful set of classes for creating statistical genetic programs.
  ☆52Updated 2 years ago