lh3 / kmer-cnt
Code examples of fast and simple k-mer counters for tutorial purposes
☆167Updated 4 years ago
Alternatives and similar repositories for kmer-cnt:
Users that are interested in kmer-cnt are comparing it to the libraries listed below
- SIMD partial order alignment tool/library☆163Updated last year
- Program for aligning DNA sequences, a pairwise aligner.☆206Updated last month
- Tools for manipulating sequence graphs in the GFA and rGFA formats☆217Updated 5 months ago
- A fast approximate aligner for long DNA sequences☆276Updated 3 months ago
- Wavefront alignment algorithm (WFA): Fast and exact gap-affine pairwise alignment☆201Updated 2 years ago
- A fast K-mer counter for high-fidelity shotgun datasets☆123Updated 2 weeks ago
- Pairwise whole genome aligner☆143Updated this week
- CCS: Generate Highly Accurate Single-Molecule Consensus Reads (HiFi Reads)☆117Updated 10 months ago
- Long read / genome alignment software☆268Updated 2 months ago
- a long read simulator that can imitate many types of read problems☆193Updated 5 months ago
- Ultra-fast methylation calling and event alignment tool for nanopore sequencing data (supports CUDA acceleration)☆149Updated 3 months ago
- base-accurate DNA sequence alignments using WFA and mashmap3☆180Updated this week
- Assemblytics is a bioinformatics tool to detect and analyze structural variants from a genome assembly by comparing it to a reference gen…☆140Updated 2 months ago
- Fast and frugal disk based k-mer counter☆281Updated last month
- A minimap2 frontend for PacBio native data formats☆178Updated last month
- Assembled Genomes Compressor☆159Updated last month
- ☆196Updated 5 months ago
- abPOA: an SIMD-based C library for fast partial order alignment using adaptive band☆119Updated this week
- PacBio Secondary Analysis Tools on Bioconda. Contains list of PacBio packages available via conda.☆256Updated 6 months ago
- Workflows and tutorials for LongRead analysis with specific focus on Oxford Nanopore data☆130Updated 3 years ago
- SALSA: A tool to scaffold long read assemblies with Hi-C data☆182Updated 8 months ago
- A fast whole-genome aligner based on de Bruijn graphs☆142Updated 2 years ago
- RaGOO is no longer supported. Please use RagTag instead: https://github.com/malonge/RagTag☆172Updated 3 years ago
- 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…☆295Updated 10 months ago
- MetaEuk - sensitive, high-throughput gene discovery and annotation for large-scale eukaryotic metagenomics☆180Updated 6 months ago
- Genome browser and variant annotation☆289Updated this week
- Clair3 - Symphonizing pileup and full-alignment for high-performance long-read variant calling☆252Updated last week
- Tool to plot synteny and structural rearrangements between genomes☆292Updated last month
- Ultra-fast de novo assembler using long noisy reads☆131Updated 3 years ago
- Aligns short reads using dynamic seed size with strobemers☆160Updated this week