Alternatives and similar repositories for kmindex

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

• oma219 / spumoni
  Pan-Genomic Matching Statistics
  ☆54Updated last year
• JensUweUlrich / Taxor
  Fast and space-efficient taxonomic classification of long reads
  ☆43Updated 3 months ago
• jermp / fulgor
  ⚡️ 🧬 Fulgor is a fast and space-efficient colored de Bruijn graph index.
  ☆57Updated 2 weeks ago
• algbio / themisto
  Space-efficient pseudoalignment with a colored de Bruijn graph
  ☆52Updated 8 months ago
• hzi-bifo / Haploflow
  ☆30Updated 2 years ago
• bluenote-1577 / floria
  Strain-level haplotyping for metagenomes with short or long-reads.
  ☆59Updated 7 months ago
• JensUweUlrich / ReadBouncer
  Fast and scalable nanopore adaptive sampling
  ☆34Updated 2 years ago
• zhaoxiaofei / bindash
  Fast and precise comparison of genomes and metagenomes (in the order of terabytes) on a typical personal laptop
  ☆69Updated 4 months ago
• rvicedomini / strainberry
  Automated strain separation of low-complexity metagenomes
  ☆53Updated 4 years ago
• karel-brinda / Phylign
  Alignment against all pre-2019 bacteria on laptops within a few hours (former MOF-Search)
  ☆39Updated last year
• LuoGroup2023 / PanTax
  PanTax: Strain-level metagenomic profiling using pangenome graphs
  ☆44Updated 3 months ago
• dnbaker / dashing2
  Dashing 2 is a fast toolkit for k-mer and minimizer encoding, sketching, comparison, and indexing.
  ☆68Updated last year
• bacpop / pp-sketchlib
  Library of sketching functions used by PopPUNK
  ☆31Updated 8 months ago
• rcedgar / urmap
  URMAP ultra-fast read mapper
  ☆38Updated 5 years ago
• tseemann / seeka
  Get microbial sequence data easier and faster
  ☆28Updated 6 years ago
• gcgreenberg / LexicHash
  A novel method for sequence similarity estimation
  ☆28Updated last year
• rrwick / Rebaler
  reference-based long read assemblies of bacterial genomes
  ☆51Updated 4 years ago
• iqbal-lab-org / make_prg
  Code to create a PRG from a Multiple Sequence Alignment file
  ☆25Updated 2 months ago
• bluenote-1577 / myloasm
  A new high-resolution long-read metagenome assembler for even noisy reads
  ☆109Updated 2 months ago
• RabbitBio / RabbitTClust
  RabbitTClust: enabling fast clustering analysis of millions bacteria genomes with MinHash sketches
  ☆51Updated 2 months ago
• sourmash-bio / sourmash_plugin_branchwater
  fast, multithreaded sourmash operations: search, compare, and gather.
  ☆25Updated last week
• karel-brinda / MiniPhy
  Phylogenetic compression of extremely large genome collections [661k ↘𝟭𝟲𝗚𝗶𝗕 | BIGSIdata ↘𝟰𝟴𝗚𝗶𝗕 | AllTheBact'23 ↘𝟳𝟱𝗚𝗶𝗕]
  ☆43Updated 8 months ago
• kamimrcht / REINDEER
  REINDEER REad Index for abuNDancE quERy
  ☆56Updated 5 months ago
• tlemane / kmdiff
  Differential k-mer analysis
  ☆38Updated last year
• lh3 / miniwfa
  A reimplementation of the WaveFront Alignment algorithm at low memory
  ☆50Updated last year
• will-rowe / groot
  A resistome profiler for Graphing Resistance Out Of meTagenomes
  ☆65Updated 5 years ago
• dib-lab / charcoal
  Remove contaminated contigs from genomes using k-mers and taxonomies.
  ☆59Updated 2 years ago
• ekg / edyeet
  base-accurate DNA sequence alignments using edlib and mashmap2
  ☆32Updated 4 years ago
• niemasd / ViralConsensus
  Fast viral consensus genome reconstruction
  ☆25Updated 5 months ago
• edawson / gfakluge
  A C++ library and utilities for manipulating the Graphical Fragment Assembly format.
  ☆55Updated 3 years ago