A python library for efficient KNN search within metric spaces using multiple distance functions.
☆28Mar 30, 2026Updated last month
Alternatives and similar repositories for pynear
Users that are interested in pynear are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- Optimal distance lower bound k-mer sampling.☆12Jun 19, 2024Updated last year
- PyO3 bindings and Python interface to skani, a method for fast genomic identity calculation using sparse chaining.☆29Aug 20, 2025Updated 8 months ago
- Factorize metagenotypes to infer strains and their abundances☆12Sep 29, 2024Updated last year
- Efficient and fast querying and parsing of GTDB's data☆29Aug 21, 2025Updated 8 months ago
- Rust coder/decoder for Nucleotide Archival Format (NAF) files.☆10Jan 31, 2025Updated last year
- Serverless GPU API endpoints on Runpod - Get Bonus Credits • AdSkip the infrastructure headaches. Auto-scaling, pay-as-you-go, no-ops approach lets you focus on innovating your application.
- Iterate k-min-mers from a DNA sequence in Rust☆13Apr 8, 2024Updated 2 years ago
- Genomewide Epistasis Analysis on Bacteria☆15May 13, 2025Updated 11 months ago
- Fast and exact gap-affine partial order alignment☆68Apr 25, 2026Updated last week
- Just another minhash implementation.☆12Apr 28, 2026Updated last week
- ☆13Dec 3, 2024Updated last year
- Fast implementation of KofamScan optimized for high-memory systems using PyHMMER☆18Jan 13, 2026Updated 3 months ago
- Drug Resistance Prediction with Reference Graphs☆21Oct 23, 2025Updated 6 months ago
- PyO3 bindings and Python interface to sylph, an ultrafast method for containment ANI querying and taxonomic profiling.☆21Dec 12, 2024Updated last year
- Inferring bacterial recombination rates from large-scale sequencing datasets.☆41Feb 25, 2023Updated 3 years ago
- 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.
- A Python interface to gb-io, a fast GenBank parser written in Rust.☆24Apr 23, 2026Updated 2 weeks ago
- Long Read Based SV Calling Tools Analysis☆14Mar 22, 2024Updated 2 years ago
- ProphAsm – a rapid computation of simplitigs directly from k-mer sets☆25Feb 17, 2023Updated 3 years ago
- Cython bindings and Python interface to FAMSA, an algorithm for ultra-scale multiple sequence alignments.☆41Mar 24, 2026Updated last month
- Cython bindings and Python interface to trimAl, a tool for automated alignment trimming. Now with SIMD!☆27Mar 25, 2026Updated last month
- Microbial agile accurate SNP Typer☆30Dec 27, 2023Updated 2 years ago
- [DEPRECATED] Bamboo: a tool for quality control and error profiling of long-read sequencing data.☆15Mar 26, 2026Updated last month
- Overview of our data for microbial genomic benchmarking☆37Apr 22, 2026Updated 2 weeks ago
- A Rust library for parsing, writing and manipulating Genbank sequence files☆24Apr 20, 2025Updated last year
- AI Agents on DigitalOcean Gradient AI Platform • AdBuild production-ready AI agents using customizable tools or access multiple LLMs through a single endpoint. Create custom knowledge bases or connect external data.
- Protein sequence domain annotation with a language model☆32Apr 21, 2026Updated 2 weeks ago
- Fast and precise comparison of genomes and metagenomes (in the order of terabytes) on a typical personal laptop☆74Apr 1, 2026Updated last month
- Rust library for processing sequencing reads.☆25Sep 2, 2024Updated last year
- BLEND is a mechanism that can efficiently find fuzzy seed matches between sequences to significantly improve the performance and accuracy…☆47May 10, 2023Updated 2 years ago
- RCandy: an R package for visualising homologous recombination events in bacterial genomes☆25Jun 17, 2022Updated 3 years ago
- A hash map using the BooPHF perfect hash function☆13Sep 25, 2016Updated 9 years ago
- Cython bindings and Python interface to MUSCLE v5, a highly efficient and accurate multiple sequence alignment software.☆25Mar 7, 2026Updated 2 months ago
- Rapid estimation of phylogenetic trees using sketching☆13Feb 18, 2025Updated last year
- A utility framework for the management of genome-scale metabolic models.☆11Mar 28, 2020Updated 6 years ago
- End-to-end encrypted email - Proton Mail • AdSpecial offer: 40% Off Yearly / 80% Off First Month. All Proton services are open source and independently audited for security.
- Snakemake workflow to benchmark scRNA-seq data simulators☆14Aug 10, 2022Updated 3 years ago
- Metabolic modeling tutorial for EMBO practical course: Metabolite and species dynamics in microbial communities 2022☆13Jan 8, 2024Updated 2 years ago
- Pan-genome inference and genotyping with long noisy or short accurate reads☆120Dec 13, 2024Updated last year
- Python package for compositional data analysis☆14Dec 1, 2023Updated 2 years ago
- Python implementation of barrnap (Bacterial ribosomal RNA predictor)☆26Jan 25, 2025Updated last year
- A easy-to-use Python API for Primer3 primer design.☆16Nov 10, 2022Updated 3 years ago
- A Python implementation of the OrthoANI algorithm for nucleotide identity measurement.☆36Jul 21, 2025Updated 9 months ago