Alternatives and similar repositories for genome-sketching

Users that are interested in genome-sketching are comparing it to the libraries listed below

• kamimrcht / REINDEER
  REINDEER REad Index for abuNDancE quERy
  ☆56Updated 2 months ago
• oma219 / spumoni
  Pan-Genomic Matching Statistics
  ☆53Updated last year
• will-rowe / hulk
  Histosketching Using Little Kmers
  ☆56Updated 2 years ago
• bcgsc / ntCard
  Estimating k-mer coverage histogram of genomics data
  ☆76Updated last year
• rcedgar / urmap
  URMAP ultra-fast read mapper
  ☆38Updated 5 years ago
• dnbaker / dashing2
  Dashing 2 is a fast toolkit for k-mer and minimizer encoding, sketching, comparison, and indexing.
  ☆66Updated last year
• lbcb-sci / ra
  Assembler for raw de novo genome assembly of long uncorrected reads.
  ☆36Updated 5 years ago
• GATB / dsk
  k-mer counting software
  ☆39Updated 3 years ago
• schmeing / ReSeq
  More realistic simulator for genomic DNA sequences from Illumina machines that achieves a similar k-mer spectrum as the original
  ☆51Updated 3 years ago
• medvedevgroup / TwoPaCo
  A fast constructor of the compressed de Bruijn graph from many genomes
  ☆42Updated 7 months ago
• lh3 / lv89
  C implementation of the Landau-Vishkin algorithm
  ☆35Updated 3 years ago
• edawson / gfakluge
  A C++ library and utilities for manipulating the Graphical Fragment Assembly format.
  ☆54Updated 3 years ago
• zhaoxiaofei / bindash
  Fast and precise comparison of genomes and metagenomes (in the order of terabytes) on a typical personal laptop
  ☆69Updated last month
• ParBLiSS / PaSGAL
  Parallel Sequence to Graph Alignment
  ☆36Updated 2 years ago
• nluhmann / BlastFrost
  ☆44Updated 3 years ago
• nlapier2 / Metalign
  Metalign: efficient alignment-based metagenomic profiling via containment min hash
  ☆33Updated 2 years ago
• jermp / fulgor
  ⚡️ 🧬 Fulgor is a fast and space-efficient colored de Bruijn graph index.
  ☆52Updated last week
• lh3 / etrf
  Exact Tandem Repeat Finder (not a TRF replacement)
  ☆49Updated 5 years ago
• will-rowe / groot
  A resistome profiler for Graphing Resistance Out Of meTagenomes
  ☆66Updated 5 years ago
• benedictpaten / marginPhase
  ☆34Updated 5 years ago
• tlemane / kmindex
  Index kmtricks bf matrices
  ☆45Updated 2 weeks ago
• ksahlin / strobemers
  A repository for generating strobemers and evalaution
  ☆78Updated last year
• thackl / minidot
  Fast and pretty dotplots for whole genomes assemblies using minimap and R/ggplot2
  ☆76Updated 9 years ago
• HaploConduct / HaploConduct
  Haplotype-aware genome assembly toolkit
  ☆29Updated 5 years ago
• iqbal-lab-org / make_prg
  Code to create a PRG from a Multiple Sequence Alignment file
  ☆25Updated last week
• refresh-bio / kmer-db
  Kmer-db is a fast and memory-efficient tool for large-scale k-mer analyses (indexing, querying, estimating evolutionary relationships, et…
  ☆93Updated 4 months ago
• iqbal-lab / Mykrobe-predictor
  Antibiotic resistance predictions in minutes on a laptop
  ☆50Updated 6 years ago
• dkoslicki / CMash
  Fast and accurate set similarity estimation via containment min hash
  ☆42Updated last year
• edawson / rkmh
  Classify sequencing reads using MinHash.
  ☆48Updated 5 years ago
• morispi / CONSENT
  Scalable long read self-correction and assembly polishing with multiple sequence alignment
  ☆53Updated last year