Fast and accurate genomic distances using HyperLogLog
☆163Jan 19, 2023Updated 3 years ago
Alternatives and similar repositories for dashing
Users that are interested in dashing are comparing it to the libraries listed below
Sorting:
- Dashing 2 is a fast toolkit for k-mer and minimizer encoding, sketching, comparison, and indexing.☆70Jun 17, 2024Updated last year
- Histosketching Using Little Kmers☆57May 25, 2023Updated 2 years ago
- Tool to estimate deltas for sequence sets and answer questions about relative contribution☆21Mar 25, 2025Updated 11 months ago
- A fast approximate aligner for long DNA sequences☆287Oct 11, 2024Updated last year
- ☆20Aug 18, 2020Updated 5 years ago
- Wavefront alignment algorithm (WFA): Fast and exact gap-affine pairwise alignment☆199Mar 8, 2022Updated 4 years ago
- a toolset for fast DNA read set matching and assembly using a new type of reduced kmer☆37Aug 4, 2021Updated 4 years ago
- An efficient index for the colored, compacted, de Bruijn graph☆111Mar 11, 2026Updated last week
- Fast and precise comparison of genomes and metagenomes (in the order of terabytes) on a typical personal laptop☆74Jul 31, 2025Updated 7 months ago
- Bonsai: Fast, flexible taxonomic analysis and classification☆70Apr 9, 2024Updated last year
- Quickly search, compare, and analyze genomic and metagenomic data sets.☆540Mar 9, 2026Updated last week
- C++ Implementations of sketch data structures with SIMD Parallelism, including Python bindings☆157Jul 23, 2024Updated last year
- Fast genome and metagenome distance estimation using MinHash☆436Sep 19, 2025Updated 6 months ago
- Squeakr: An Exact and Approximate k -mer Counting System☆86Feb 23, 2025Updated last year
- Peregrine: Fast Genome Assembler Using SHIMMER Index☆102Feb 6, 2022Updated 4 years ago
- The Modular Aligner and The Modular SV Caller☆46Jul 18, 2023Updated 2 years ago
- A simple toolset for BED files (warning: CLI may change before bedtk becomes stable)☆143Aug 24, 2025Updated 6 months ago
- ProphAsm – a rapid computation of simplitigs directly from k-mer sets☆25Feb 17, 2023Updated 3 years ago
- Genome inference from a population reference graph☆96Apr 1, 2025Updated 11 months ago
- Global alignment and alignment extension☆142Jun 27, 2023Updated 2 years ago
- Sensitive and Fast Alignment Search Tool for Long Read sequencing Data.☆40Jul 15, 2019Updated 6 years ago
- Filter of Pairwise Alignement☆44Jan 31, 2022Updated 4 years ago
- URMAP ultra-fast read mapper☆38Jun 15, 2020Updated 5 years ago
- [MOVED] Moved to paoloshasta/shasta. De novo assembly from Oxford Nanopore reads☆274Oct 13, 2022Updated 3 years ago
- De novo genome assembly and multisample variant calling☆112Mar 28, 2019Updated 6 years ago
- seqcover allows users to view coverage for hundreds of genes and dozens of samples☆52Apr 9, 2021Updated 4 years ago
- ☆286Dec 29, 2025Updated 2 months ago
- Metagenomic binning using low-density hashing a support vector machine☆20Oct 2, 2020Updated 5 years ago
- Pan-genome inference and genotyping with long noisy or short accurate reads☆119Dec 13, 2024Updated last year
- a wee tool for random access into BGZF files.☆86May 10, 2018Updated 7 years ago
- Mantis: A Fast, Small, and Exact Large-Scale Sequence-Search Index☆86Mar 7, 2024Updated 2 years ago
- A fast constructor of the compressed de Bruijn graph from many genomes☆42Nov 27, 2025Updated 3 months ago
- A fast and space-efficient pre-filter for querying very large collections of nucleotide sequences.☆53Mar 7, 2026Updated last week
- A tool for Racon polishing of miniasm assemblies☆80Mar 2, 2026Updated 2 weeks ago
- Layout module for raw de novo genome assembly of long uncorrected reads.☆21Feb 2, 2021Updated 5 years ago
- base-accurate DNA sequence alignments using edlib and mashmap2☆32Feb 15, 2021Updated 5 years ago
- Next Index to Query Kmer Intersection☆17Feb 1, 2023Updated 3 years ago
- A EXPERIMENTAL fork of minimap2 optimized for assembly-to-reference alignment☆87Apr 8, 2021Updated 4 years ago
- Pan-Genomic Matching Statistics☆55Apr 3, 2024Updated last year