Alternatives and similar repositories for hulk:

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

• splatlab / squeakr
  Squeakr: An Exact and Approximate k -mer Counting System
  ☆85Updated 11 months ago
• kamimrcht / REINDEER
  REINDEER REad Index for abuNDancE quERy
  ☆57Updated 5 months ago
• bcgsc / ntCard
  Estimating k-mer coverage histogram of genomics data
  ☆76Updated last year
• shenwei356 / strobemers
  A Go implementation of the strobemers (https://github.com/ksahlin/strobemers)
  ☆14Updated 3 years ago
• karel-brinda / ococo
  Ococo: the first online variant and consensus caller. Call genomic consensus directly from an unsorted SAM/BAM stream.
  ☆47Updated 6 years ago
• dnbaker / bonsai
  Bonsai: Fast, flexible taxonomic analysis and classification
  ☆70Updated 9 months ago
• VGP / vgp-tools
  ☆28Updated last year
• edawson / rkmh
  Classify sequencing reads using MinHash.
  ☆48Updated 4 years ago
• jts / ncov-tools
  Small collection of tools for performing quality control on coronavirus sequencing data and genomes
  ☆48Updated 8 months ago
• bioinformatics-centre / BayesTyper
  A method for variant graph genotyping based on exact alignment of k-mers
  ☆87Updated 5 years ago
• lh3 / sdust
  Symmetric DUST for finding low-complexity regions in DNA sequences
  ☆34Updated last year
• cosmo-team / cosmo
  Cosmo is a fast, low-memory DNA assembler using a Succinct (variable order) de Bruijn Graph.
  ☆51Updated 10 months ago
• Nazeeefa / awesome-sequencing-tech-papers
  A collection of publications on comparison of high-throughput sequencing technologies.
  ☆26Updated 2 weeks ago
• phac-nml / refseq_masher
  Mash MinHash search your nucleotide sequences against a NCBI RefSeq genomes database
  ☆40Updated 4 years ago
• esteinig / sketchy
  Genomic neighbor typing of bacterial pathogens using MinHash
  ☆44Updated 2 years ago
• ksahlin / strobemers
  A repository for generating strobemers and evalaution
  ☆77Updated 9 months ago
• NBISweden / pipelines-nextflow
  A set of workflows written in Nextflow for Genome Annotation.
  ☆44Updated 6 months ago
• bcgsc / ntEdit
  ✏️ Genome assembly polishing & SNV detection
  ☆64Updated last month
• lh3 / pre-pe
  Preprocessing paired-end reads produced with experiment-specific protocols
  ☆32Updated 6 years ago
• vpc-ccg / haslr
  A fast tool for hybrid genome assembly of long and short reads
  ☆76Updated 4 years ago
• morispi / CONSENT
  Scalable long read self-correction and assembly polishing with multiple sequence alignment
  ☆55Updated 11 months ago
• conchoecia / pauvre
  Pauvre: QC and genome browser plotting Oxford Nanopore and PacBio long reads.
  ☆52Updated 2 months ago
• benedictpaten / sonLib
  Small general purpose library for C and Python with focus on bioinformatics.
  ☆29Updated 2 years ago
• ncbi / rapt
  Read Assembly and Annotation Pipeline Tool
  ☆56Updated 3 months ago
• dib-lab / charcoal
  Remove contaminated contigs from genomes using k-mers and taxonomies.
  ☆55Updated last year
• ekg / edyeet
  base-accurate DNA sequence alignments using edlib and mashmap2
  ☆33Updated 3 years ago
• jermp / fulgor
  Fulgor is a fast and space-efficient colored de Bruijn graph index.
  ☆46Updated this week
• richarddurbin / modimizer
  a toolset for fast DNA read set matching and assembly using a new type of reduced kmer
  ☆37Updated 3 years ago
• ekg / viral-assembly
  exploring viral genome assembly with variation graph tools
  ☆19Updated 4 years ago
• bhattlab / phanta
  Workflow to rapidly quantify taxa from all domains of life, directly from short-read human gut metagenomes
  ☆61Updated 3 weeks ago