Alternatives and similar repositories for kmers

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

• rchikhi / rust-alignbench
  Pairwise nucleotide alignment benchmark of Rust bindings
  ☆31Updated last year
• pairwise-alignment / pa-bench
  Benchmarking pairwise aligners
  ☆36Updated 3 months ago
• mrvollger / rustybam
  bioinformatics toolkit in rust
  ☆89Updated this week
• wdecoster / kyber
  ☆21Updated 5 months ago
• noamteyssier / gia
  gia: Genomic Interval Arithmetic
  ☆62Updated 9 months ago
• HudsonAlpha / fmlrc2
  ☆47Updated 2 years ago
• quinlan-lab / bedder-rs
  an API for intersections of genomic data
  ☆75Updated this week
• rust-seq / minimizer-iter
  Iterate over minimizers of a DNA sequence
  ☆29Updated 10 months ago
• codialab / GFAffix
  GFAffix identifies walk-preserving shared affixes in variation graphs and collapses them into a non-redundant graph structure.
  ☆36Updated last week
• broadinstitute / poasta
  Fast and exact gap-affine partial order alignment
  ☆51Updated last month
• richarddurbin / modimizer
  a toolset for fast DNA read set matching and assembly using a new type of reduced kmer
  ☆37Updated 3 years ago
• smarco / BiWFA-paper
  Bidirectional WFA (Paper)
  ☆46Updated last year
• luizirber / nthash
  ntHash implementation in Rust
  ☆36Updated 10 months ago
• jltsiren / gbwtgraph
  GBWT-based handle graph
  ☆31Updated 2 months ago
• mlin / gfabase
  GFA insert into GenomicSQLite
  ☆49Updated 3 years ago
• lh3 / sdust
  Symmetric DUST for finding low-complexity regions in DNA sequences
  ☆42Updated last year
• moold / kseq-rs
  A FASTA/FASTQ format parser library
  ☆20Updated last year
• jermp / fulgor
  ⚡️ 🧬 Fulgor is a fast and space-efficient colored de Bruijn graph index.
  ☆50Updated this week
• COMBINE-lab / piscem
  Rust wrapper for the next generation (still currently in C++)
  ☆25Updated this week
• ydLiu-HIT / deSALT
  deSALT - De Bruijn graph-based Spliced Aligner for Long Transcriptome reads
  ☆44Updated 2 years ago
• ekg / HLA-zoo
  genome variation graphs constructed from HLA GRCh38 ALTs
  ☆23Updated 3 years ago
• natir / fpa
  Filter of Pairwise Alignement
  ☆44Updated 3 years ago
• edawson / gfakluge
  A C++ library and utilities for manipulating the Graphical Fragment Assembly format.
  ☆54Updated 3 years ago
• annalam / seqkit
  Toolkit for manipulating FASTA and SAM files
  ☆18Updated last year
• KolmogorovLab / Wakhan
  Haplotype-specific somatic copy number aberrations/profiling from long reads sequencing data
  ☆50Updated 3 weeks ago
• 10XGenomics / rust-pseudoaligner
  Single-Cell RNA-seq pseudo-aligner
  ☆51Updated last year
• jts / bri
  Bam Read Index - Extract alignments from a bam file by readname
  ☆25Updated last year
• alignoth / alignoth
  Creating alignment plots from bam files
  ☆65Updated last week
• lskatz / fasten
  Fasten toolkit, for streaming operations on fastq files
  ☆79Updated last month
• jeizenga / wfalm
  Refinements of the WFA alignment algorithm with better complexity
  ☆26Updated 3 years ago