An open-source software package to power microbial genomic databases
☆70Apr 24, 2026Updated last week
Alternatives and similar repositories for loculus
Users that are interested in loculus are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- An open-source pathogen sequence database dedicated to equitable sharing, transparent governance, & empowering global public health.☆53Updated this week
- An API, a query engine, and a database schema for genomic sequences; currently with a focus on SARS-CoV-2☆31Apr 23, 2026Updated last week
- High-performance analytical database for sequence alignment data☆18Updated this week
- TreeKnit is a package that infers Ancestral Reassortment Graphs for segmented genomes (typically, human influenza).☆14Feb 18, 2025Updated last year
- Nextflow workflows to assign Salmonella serotype based on Genome similarity using MASH, SOURMASH and KMA.☆13Dec 24, 2025Updated 4 months 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.
- ☆12Feb 15, 2023Updated 3 years ago
- A tool for exploring large trees in the browser☆131Apr 20, 2026Updated last week
- ☆30Apr 24, 2026Updated last week
- A Nextflow pipeline for viral genomics (Influenza/RSV) supporting Illumina and Nanopore sequencing of clinical and wastewater samples.☆10Feb 27, 2026Updated 2 months ago
- Cython API for the Mutation Annotated Tree (MAT) Online Phylogenetics Toolkit☆14May 28, 2025Updated 11 months ago
- Nextstrain build for avian influenza viruses☆27Apr 20, 2026Updated last week
- A pipeline that ingests SARS-CoV-2 (i.e. nCoV) data from GISAID and Genbank, transforms it, stores it on S3, and triggers Nextstrain nCoV…☆37Apr 18, 2026Updated last week
- Utility to alias and dealias pango lineages☆23Dec 18, 2023Updated 2 years ago
- US Health and Human Services scientific funding visualizations☆17Updated this week
- 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.
- emm Automatic Isolate Labeller☆12Mar 25, 2025Updated last year
- ☆21Feb 12, 2026Updated 2 months ago
- Phylogenetic maximum representation sampling: choosing most representative strains or taxa☆41Mar 31, 2026Updated last month
- Consensus sequences for U.S. H5N1 clade 2.3.4.4b☆37Updated this week
- µbinfie blog☆19Jul 21, 2025Updated 9 months ago
- Bitpacked sequence trait and implementation☆18Feb 27, 2026Updated 2 months ago
- A Python package to update the MLST database for the mlst tool.☆23Apr 13, 2026Updated 2 weeks ago
- Archived - please see updated sccmec tool at link below☆13Aug 30, 2024Updated last year
- IRMA (the Iterative Refinement Meta-Assembler) is a highly configurable and adaptive tool for virus genome assembly.☆23Updated this week
- 1-Click AI Models by DigitalOcean Gradient • AdDeploy popular AI models on DigitalOcean Gradient GPU virtual machines with just a single click. Zero configuration with optimized deployments.
- Fast, scalable, accurate and accessible Bayesian phylogenetics☆44Apr 24, 2026Updated last week
- REcombination BARcode detector.☆16Apr 2, 2024Updated 2 years ago
- Compute bottom-s sketches and s-buckets sketches, using simd-minimizers crate.☆21Dec 3, 2025Updated 4 months ago
- A pipeline for bioinformatics analysis of bacterial genomes☆32Updated this week
- Repo for PrimerSchemes☆17Mar 31, 2026Updated last month
- Genome size estimation from long read overlaps☆85Apr 13, 2026Updated 2 weeks ago
- A SIMD-accelerated library to compute random minimizers☆42Apr 6, 2026Updated 3 weeks ago
- Rapidly extract reads from a FASTQ file based on taxonomic classification via Kraken2.☆13Jan 26, 2026Updated 3 months ago
- Main development repository for SpreadGL☆21Sep 30, 2024Updated 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.
- Host depletion optimised for clinical metagenomic sequencing applications☆17Nov 18, 2024Updated last year
- app to collapse Pango lineages for reporting☆13Dec 9, 2025Updated 4 months ago
- ☆25Jun 25, 2024Updated last year
- Ampseer examines reads in fastq format and identifies which multiplex PCR primer set was used to generate the SARS-CoV-2 sequencing libra…☆15Feb 27, 2024Updated 2 years ago
- NCBI Pathogen Detection Portal toolkit☆11Sep 6, 2023Updated 2 years ago
- tool to determine optimal refrerence genome given a set of fasta files☆15May 18, 2023Updated 2 years ago
- kmer based feature extraction tool for bioinformatics, metagenomics, AI/ML and more☆45Apr 11, 2026Updated 2 weeks ago