Alternatives and similar repositories for kmtricks:

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

• ksahlin / strobemers
  A repository for generating strobemers and evalaution
  ☆78Updated last year
• smarco / BiWFA-paper
  Bidirectional WFA (Paper)
  ☆46Updated 11 months ago
• DecodeGenetics / Ratatosk
  Hybrid error correction of long reads using colored de Bruijn graphs
  ☆100Updated 6 months ago
• COMBINE-lab / pufferfish
  An efficient index for the colored, compacted, de Bruijn graph
  ☆109Updated 6 months ago
• algbio / ggcat
  Compacted and colored de Bruijn graph construction and querying
  ☆82Updated this week
• ekg / seqwish
  alignment to variation graph inducer
  ☆147Updated 2 months ago
• pangenome / smoothxg
  linearize and simplify variation graphs using blocked partial order alignment
  ☆57Updated last week
• thegenemyers / FASTK
  A fast K-mer counter for high-fidelity shotgun datasets
  ☆124Updated 2 months ago
• neherlab / pangraph
  A bioinformatic toolkit to align genome assemblies into pangenome graphs
  ☆101Updated last week
• bcgsc / ntCard
  Estimating k-mer coverage histogram of genomics data
  ☆78Updated last year
• lh3 / yak
  Yet another k-mer analyzer
  ☆133Updated last year
• jltsiren / gbwt
  Substring index for paths in a graph
  ☆60Updated last month
• jermp / fulgor
  Fulgor is a fast and space-efficient colored de Bruijn graph index.
  ☆49Updated this week
• rrwick / Minipolish
  A tool for Racon polishing of miniasm assemblies
  ☆74Updated 4 years ago
• citiususc / veryfasttree
  Efficient phylogenetic tree inference for massive taxonomic datasets
  ☆117Updated last week
• ddiazdom / lcg
  Efficient, parallel compression for terabyte-scale data
  ☆43Updated 3 months ago
• seqan / raptor
  A fast and space-efficient pre-filter for querying very large collections of nucleotide sequences.
  ☆52Updated this week
• ksahlin / strobealign
  Aligns short reads using dynamic seed size with strobemers
  ☆167Updated last week
• pirovc / ganon
  ganon2 classifies genomic sequences against large sets of references efficiently, with integrated download and update of databases (refse…
  ☆96Updated last week
• lh3 / ropebwt3
  BWT construction and search
  ☆112Updated last month
• maickrau / MBG
  ☆62Updated last month
• bcgsc / ntJoin
  🔗Genome assembly scaffolder using minimizer graphs
  ☆83Updated 6 months ago
• medvedevgroup / SibeliaZ
  A fast whole-genome aligner based on de Bruijn graphs
  ☆146Updated 2 months ago
• ncbi / rapt
  This RAPT repository has been retired as of December 2024. NCBI's Read assembly and Annotation Pipeline Tool (RAPT) was a pilot service.
  ☆57Updated 2 weeks ago
• bcgsc / ntSynt
  Detecting multi-genome synteny using minimizer graph mapping
  ☆76Updated 3 months ago
• kamimrcht / REINDEER
  REINDEER REad Index for abuNDancE quERy
  ☆57Updated 8 months ago
• edawson / gfakluge
  A C++ library and utilities for manipulating the Graphical Fragment Assembly format.
  ☆54Updated 2 years ago
• lh3 / unimap
  A EXPERIMENTAL fork of minimap2 optimized for assembly-to-reference alignment
  ☆88Updated 4 years ago
• tlemane / kmindex
  Index kmtricks bf matrices
  ☆43Updated 4 months ago
• khyox / recentrifuge
  Recentrifuge: robust comparative analysis and contamination removal for metagenomics
  ☆91Updated last month