COBS - Compact Bit-Sliced Signature Index (for Genomic k-Mer Data or q-Grams)
☆20Nov 24, 2024Updated last year
Alternatives and similar repositories for cobs
Users that are interested in cobs are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- Host depletion optimised for clinical metagenomic sequencing applications☆18May 18, 2026Updated 3 weeks ago
- k-mers and the like☆22May 26, 2026Updated 2 weeks ago
- Next Index to Query Kmer Intersection☆17Feb 1, 2023Updated 3 years ago
- Compute a pairwise SNP distance matrix from one or two alignment(s)☆26Sep 12, 2024Updated last year
- Minimum plain text representation of kmer sets☆18Jan 30, 2025Updated last year
- Virtual machines for every use case on DigitalOcean • AdGet dependable uptime with 99.99% SLA, simple security tools, and predictable monthly pricing with DigitalOcean's virtual machines, called Droplets.
- sunburst plots for taxonomy - working to update Krona☆44Sep 22, 2025Updated 8 months ago
- BItsliced Genomic Signature Index - Efficient indexing and search in very large collections of WGS data☆10Jun 13, 2023Updated 3 years ago
- Variant call verification☆17May 12, 2025Updated last year
- abPOA: an SIMD-based C library for fast partial order alignment using adaptive band☆15Jul 20, 2023Updated 2 years ago
- A mathematically characterized hypothesis test for organism presence/absence in a metagenome☆37Apr 26, 2026Updated last month
- An accurate aligner of long reads to a variation graph, based on co-linear chaining☆35May 23, 2025Updated last year
- 🧮 🔢 Generate multi-sample k-mer count matrix from WGS☆11Jan 17, 2026Updated 4 months ago
- Cute tricks for SIMD vectorized binary encoding and decoding of nucleotides, in Rust.☆129Dec 30, 2020Updated 5 years ago
- Embedding-based indexing for compact storage and rapid querying of bacterial pan-genomes☆22Updated this week
- Deploy to Railway using AI coding agents - Free Credits Offer • AdUse Claude Code, Codex, OpenCode, and more. Autonomous software development now has the infrastructure to match with Railway.
- Split k-mer analysis – version 2☆104Apr 9, 2026Updated 2 months ago
- Code for the paper Succinct k-mer Set Representations Using Subset Rank Queries on the Spectral Burrows-Wheeler Transform (SBWT)☆24Mar 13, 2025Updated last year
- Remove human reads from a sequencing run☆48Updated this week
- Map query sequences to the assemblies of all pre-June 2023 bacteria (https://ftp.ebi.ac.uk/pub/databases/AllTheBacteria/Releases/0.2/) on…☆12May 22, 2024Updated 2 years ago
- List and download schemes from pubMLST.org and other BIGSDB servers☆10Oct 14, 2024Updated last year
- Fast, robust ANI and aligned fraction for (metagenomic) genomes and contigs.☆253May 13, 2026Updated last month
- COBS - Compact Bit-Sliced Signature Index (for Genomic k-Mer Data or q-Grams)☆89Jan 25, 2024Updated 2 years ago
- HyGen: Compact and Efficient Genome Sketching using Hyperdimensional Vectors☆32Aug 26, 2024Updated last year
- Rapid estimation of phylogenetic trees using sketching☆13Feb 18, 2025Updated last year
- Deploy on Railway without the complexity - Free Credits Offer • AdConnect your repo and Railway handles the rest with instant previews. Quickly provision container image services, databases, and storage volumes.
- ntHash implementation in Rust☆36Jul 12, 2024Updated last year
- A versatile pairwise aligner for genomic and spliced nucleotide sequences☆24Sep 12, 2025Updated 9 months ago
- skDER & CiDDER: efficient & high-resolution dereplication of microbial genomes.☆57May 24, 2026Updated 3 weeks ago
- ☆14Jan 20, 2016Updated 10 years ago
- Bifrost graph gene caller.☆98Apr 12, 2026Updated 2 months ago
- Pan-genome inference and genotyping with long noisy or short accurate reads☆118Dec 13, 2024Updated last year
- Iterate over minimizers of a DNA sequence☆33Jul 12, 2024Updated last year
- Rust crate to deal with phylogenetic trees☆14Dec 3, 2025Updated 6 months ago
- interactive barplot for amplicon sequencing☆13Dec 5, 2024Updated last year
- Proton VPN Special Offer - Get 70% off • AdSpecial partner offer. Trusted by over 100 million users worldwide. Tested, Approved and Recommended by Experts.
- Variant call adjudication☆17Jun 13, 2024Updated 2 years ago
- Compute bottom-s sketches and s-buckets sketches, using simd-minimizers crate.☆21May 31, 2026Updated 2 weeks ago
- An efficient CLI to extract sequences from the SRA☆122Updated this week
- ☆14Oct 14, 2020Updated 5 years ago
- Python and Rust library for loading, saving, and manipulating taxonomic trees☆54May 18, 2026Updated 3 weeks ago
- ProphAsm – a rapid computation of simplitigs directly from k-mer sets☆25Feb 17, 2023Updated 3 years ago
- String algorithm visualizations☆14Feb 7, 2023Updated 3 years ago