Alternatives and similar repositories for kmer-cnt:

Users that are interested in kmer-cnt are comparing it to the libraries listed below

• lastz / lastz
  Program for aligning DNA sequences, a pairwise aligner.
  ☆206Updated last month
• rvaser / spoa
  SIMD partial order alignment tool/library
  ☆164Updated last year
• marbl / MashMap
  A fast approximate aligner for long DNA sequences
  ☆278Updated 4 months ago
• lh3 / gfatools
  Tools for manipulating sequence graphs in the GFA and rGFA formats
  ☆218Updated 6 months ago
• thegenemyers / FASTK
  A fast K-mer counter for high-fidelity shotgun datasets
  ☆123Updated this week
• marbl / Winnowmap
  Long read / genome alignment software
  ☆272Updated 3 months ago
• yangao07 / abPOA
  abPOA: an SIMD-based C library for fast partial order alignment using adaptive band
  ☆119Updated this week
• rrwick / Badread
  a long read simulator that can imitate many types of read problems
  ☆200Updated 6 months ago
• rrwick / Long-read-assembler-comparison
  Benchmarking of long-read assembly tools for bacterial whole genomes
  ☆170Updated 3 years ago
• refresh-bio / agc
  Assembled Genomes Compressor
  ☆159Updated 2 months ago
• PacificBiosciences / pbmm2
  A minimap2 frontend for PacBio native data formats
  ☆181Updated 2 months ago
• refresh-bio / KMC
  Fast and frugal disk based k-mer counter
  ☆284Updated 2 months ago
• PacificBiosciences / ccs
  CCS: Generate Highly Accurate Single-Molecule Consensus Reads (HiFi Reads)
  ☆116Updated 10 months ago
• ksahlin / strobealign
  Aligns short reads using dynamic seed size with strobemers
  ☆164Updated last week
• philres / ngmlr
  NGMLR is a long-read mapper designed to align PacBio or Oxford Nanopore (standard and ultra-long) to a reference genome with a focus on r…
  ☆296Updated 10 months ago
• HKU-BAL / Clair3
  Clair3 - Symphonizing pileup and full-alignment for high-performance long-read variant calling
  ☆257Updated last month
• VGP / vgp-assembly
  VGP repository for the genome assembly working group
  ☆190Updated last year
• smarco / WFA-paper
  Wavefront alignment algorithm (WFA): Fast and exact gap-affine pairwise alignment
  ☆200Updated 2 years ago
• PacificBiosciences / pbbioconda
  PacBio Secondary Analysis Tools on Bioconda. Contains list of PacBio packages available via conda.
  ☆260Updated last week
• thegenemyers / FASTGA
  Pairwise whole genome aligner
  ☆147Updated last month
• isovic / racon
  Ultrafast consensus module for raw de novo genome assembly of long uncorrected reads. http://genome.cshlp.org/content/early/2017/01/18/gr…
  ☆276Updated 9 months ago
• mkirsche / Jasmine
  Jasmine: SV Merging Across Samples
  ☆202Updated last month
• malonge / RaGOO
  RaGOO is no longer supported. Please use RagTag instead: https://github.com/malonge/RagTag
  ☆172Updated 3 years ago
• xiaochuanle / NECAT
  Nanopore data assembler
  ☆143Updated 2 years ago
• Dfam-consortium / RepeatModeler
  De-Novo Repeat Discovery Tool
  ☆200Updated last month
• ruanjue / smartdenovo
  Ultra-fast de novo assembler using long noisy reads
  ☆131Updated 3 years ago
• waveygang / wfmash
  base-accurate DNA sequence alignments using WFA and mashmap3
  ☆182Updated this week
• PacificBiosciences / pbsv
  pbsv - PacBio structural variant (SV) calling and analysis tools
  ☆132Updated 3 months ago
• Nextomics / NextPolish
  Fast and accurately polish the genome generated by long reads.
  ☆217Updated last month
• marbl / SALSA
  SALSA: A tool to scaffold long read assemblies with Hi-C data
  ☆183Updated 8 months ago