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 4 months ago
• will-rowe / hulk
  Histosketching Using Little Kmers
  ☆56Updated 2 years ago
• oma219 / spumoni
  Pan-Genomic Matching Statistics
  ☆54Updated last year
• bcgsc / ntCard
  Estimating k-mer coverage histogram of genomics data
  ☆76Updated last year
• rcedgar / urmap
  URMAP ultra-fast read mapper
  ☆38Updated 5 years ago
• zhaoxiaofei / bindash
  Fast and precise comparison of genomes and metagenomes (in the order of terabytes) on a typical personal laptop
  ☆69Updated 3 months ago
• will-rowe / groot
  A resistome profiler for Graphing Resistance Out Of meTagenomes
  ☆65Updated 5 years ago
• nluhmann / BlastFrost
  ☆44Updated 3 years ago
• dnbaker / dashing2
  Dashing 2 is a fast toolkit for k-mer and minimizer encoding, sketching, comparison, and indexing.
  ☆67Updated last year
• 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
• lbcb-sci / ra
  Assembler for raw de novo genome assembly of long uncorrected reads.
  ☆36Updated 5 years ago
• lh3 / etrf
  Exact Tandem Repeat Finder (not a TRF replacement)
  ☆50Updated 6 years ago
• sgearle / bugwas
  Locus and lineage tests for bacterial GWAS
  ☆29Updated 8 years ago
• ggonnella / gfapy
  Gfapy: a flexible and extensible software library for handling sequence graphs in Python
  ☆70Updated last year
• lh3 / lv89
  C implementation of the Landau-Vishkin algorithm
  ☆35Updated 3 years ago
• JensUweUlrich / ReadBouncer
  Fast and scalable nanopore adaptive sampling
  ☆34Updated 2 years ago
• ParBLiSS / PaSGAL
  Parallel Sequence to Graph Alignment
  ☆36Updated 2 years ago
• dkoslicki / CMash
  Fast and accurate set similarity estimation via containment min hash
  ☆42Updated last year
• wdecoster / nanolyse
  Remove lambda phage reads from a fastq file
  ☆29Updated 2 years ago
• lh3 / sdust
  Symmetric DUST for finding low-complexity regions in DNA sequences
  ☆45Updated 3 months ago
• nlapier2 / Metalign
  Metalign: efficient alignment-based metagenomic profiling via containment min hash
  ☆33Updated 2 years ago
• dayzerodx / counterr
  ☆31Updated last year
• rpetit3 / fastq-scan
  Output FASTQ summary statistics in JSON format
  ☆29Updated 3 years ago
• GATB / dsk
  k-mer counting software
  ☆39Updated 3 years ago
• haowenz / sigmap
  A streaming method for mapping nanopore raw signals
  ☆32Updated 4 years ago
• EvolBioInf / fur
  Find Unique genomic Regions
  ☆30Updated 2 weeks ago
• TavorB / spectral_jaccard_similarity
  ☆14Updated 2 years ago
• jermp / fulgor
  ⚡️ 🧬 Fulgor is a fast and space-efficient colored de Bruijn graph index.
  ☆55Updated last week
• iqbal-lab-org / make_prg
  Code to create a PRG from a Multiple Sequence Alignment file
  ☆25Updated last month
• ekg / thesis
  my PhD thesis
  ☆36Updated 6 years ago