BItsliced Genomic Signature Index - Efficient indexing and search in very large collections of WGS data
☆124Aug 24, 2023Updated 2 years ago
Alternatives and similar repositories for BIGSI
Users that are interested in BIGSI are comparing it to the libraries listed below
Sorting:
- De novo genome assembly and multisample variant calling☆112Mar 28, 2019Updated 6 years ago
- Bifrost: Highly parallel construction and indexing of colored and compacted de Bruijn graphs☆222Oct 23, 2025Updated 4 months ago
- A resistome profiler for Graphing Resistance Out Of meTagenomes☆65May 11, 2020Updated 5 years ago
- Histosketching Using Little Kmers☆56May 25, 2023Updated 2 years ago
- Antimicrobial Resistance Identification By Assembly☆185Oct 12, 2023Updated 2 years ago
- A fast approximate aligner for long DNA sequences☆287Oct 11, 2024Updated last year
- A genomic minhashing implementation in Rust☆103Jun 17, 2025Updated 8 months ago
- Kmer-db is a fast and memory-efficient tool for large-scale k-mer analyses (indexing, querying, estimating evolutionary relationships, et…☆97May 20, 2025Updated 9 months ago
- a collection of scripts for organising bacterial genomes by species☆81Mar 18, 2022Updated 3 years ago
- Accurate and fast taxonomic classification using pseudoaligning☆21Sep 16, 2017Updated 8 years ago
- Classify sequencing reads using MinHash.☆48Apr 6, 2020Updated 5 years ago
- PopPUNK 👨🎤 (POPulation Partitioning Using Nucleotide Kmers)☆104Feb 9, 2026Updated 3 weeks ago
- Create a tree using Mash distances☆184Oct 24, 2023Updated 2 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
- Minhash Index Extended to Knead Kmer Intersection☆11Mar 18, 2020Updated 5 years ago
- De novo Extraction of Strains from MetAgeNomes☆72Jun 17, 2020Updated 5 years ago
- Genome inference from a population reference graph☆96Apr 1, 2025Updated 11 months ago
- Pan-genome inference and genotyping with long noisy or short accurate reads☆119Dec 13, 2024Updated last year
- 🐙 KrakenUniq: Metagenomics classifier with unique k-mer counting for more specific results☆244Jan 18, 2024Updated 2 years ago
- Mantis: A Fast, Small, and Exact Large-Scale Sequence-Search Index☆86Mar 7, 2024Updated last year
- Reference-free variant discovery in large eukaryotic genomes☆42Jul 13, 2021Updated 4 years ago
- CAMITAX: Taxon labels for microbial genomes☆31Dec 14, 2023Updated 2 years ago
- Fast taxonomic classification of metagenomic sequencing reads using a protein reference database☆299Apr 25, 2025Updated 10 months ago
- SeqOthello supports fast coverage query and containment query.☆12May 8, 2019Updated 6 years ago
- A graph-inspired data structure for determining likely chains of sequences from breadcrumbs of evidence☆17Jun 29, 2021Updated 4 years ago
- A database for signatures of public genomic sources☆18Jan 1, 2026Updated 2 months ago
- Library of sketching functions used by PopPUNK☆31Mar 31, 2025Updated 11 months ago
- Bonsai: Fast, flexible taxonomic analysis and classification☆70Apr 9, 2024Updated last year
- Quickly search, compare, and analyze genomic and metagenomic data sets.☆539Feb 23, 2026Updated last week
- treeWAS: A Phylogenetic Tree-Based Tool for Genome-Wide Association Studies in Microbes☆106Feb 6, 2025Updated last year
- Paint genomes with taxa-specific k-mer probabilities☆15Apr 4, 2022Updated 3 years ago
- Fast and precise comparison of genomes and metagenomes (in the order of terabytes) on a typical personal laptop☆74Jul 31, 2025Updated 7 months ago
- SKESA assembler☆125Oct 11, 2024Updated last year
- Contains the description of a file format to store kmers and associated values☆34Aug 17, 2022Updated 3 years ago
- Parsnp was designed to align the core genome of hundreds to thousands of bacterial genomes within a few minutes to few hours. Input can b…☆152Oct 2, 2025Updated 5 months ago
- hybrid assembly pipeline for bacterial genomes☆634Jul 25, 2024Updated last year
- Bloocoo is a k-mer spectrum-based read error corrector, designed to correct large datasets with a very low memory footprint.☆12May 22, 2017Updated 8 years ago
- Accurate metagenomic profiling && Fast large-scale sequence/genome searching☆207Sep 22, 2023Updated 2 years ago
- Gene cluster comparison figure generator☆636Dec 22, 2025Updated 2 months ago