Experiments with using BIGSI data structure for metagenomic and QC applications
☆19Aug 12, 2024Updated 2 years ago
Alternatives and similar repositories for colorid
Users that are interested in colorid are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- Static website for the PH4AGE alliance☆14Oct 27, 2023Updated 2 years ago
- A taxonomic classifier of plasmids☆29Jul 7, 2021Updated 5 years ago
- Predict MLST directly from uncorrected long reads☆27Oct 31, 2025Updated 9 months ago
- A Nextflow pipeline for viral genomics (Influenza/RSV) supporting Illumina and Nanopore sequencing of clinical and wastewater samples.☆10Jun 9, 2026Updated 2 months ago
- ☆14Oct 14, 2020Updated 5 years ago
- 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.
- A simple pipeline for bacterial assembly and quality control☆16Updated this week
- Sketch-based surveillance platform☆14Updated this week
- A Python package to update the MLST database for the mlst tool.☆30Jul 22, 2026Updated 3 weeks ago
- tool to determine optimal refrerence genome given a set of fasta files☆15May 18, 2023Updated 3 years ago
- Python and Rust library for loading, saving, and manipulating taxonomic trees☆54Jun 22, 2026Updated last month
- Automated Pipeline to Generate FTP Files and Manage Submission of Sequence Data to Public Repositories☆41Aug 11, 2026Updated last week
- taxonomic classifier based on the kraken2 algorithms and more☆46Dec 12, 2025Updated 8 months ago
- Indexes genomes using SNVs, MLST, or kmers for rapid querying, clustering, and visualization.☆12Feb 2, 2023Updated 3 years ago
- BRICK creates a BRIG-like interactive data visualisation for bacterial genome annotations and comparisons☆22Dec 9, 2025Updated 8 months ago
- Managed Kubernetes at scale on DigitalOcean • AdDigitalOcean Kubernetes includes the control plane, bandwidth allowance, container registry, automatic updates, and more for free.
- Dryad is a Nextflow pipeline for examining prokaryote relatedness. Dryad can perform a reference free analysis and/or SNP analysis.☆21Updated this week
- Histosketching Using Little Kmers☆56May 25, 2023Updated 3 years ago
- Nextflow workflows to assign Salmonella serotype based on Genome similarity using MASH, SOURMASH and KMA.☆13Jul 2, 2026Updated last month
- ☆10Apr 16, 2025Updated last year
- Pipeline to generate NGS reads from a phylogeny☆39Sep 13, 2022Updated 3 years ago
- Formats Roary output for viewing in FriPan☆11May 23, 2018Updated 8 years ago
- CFSAN Shigella Typing Pipeline☆15Jun 11, 2026Updated 2 months ago
- interactive barplot for amplicon sequencing☆13Dec 5, 2024Updated last year
- Genomic neighbor typing of bacterial pathogens using MinHash☆42Jan 10, 2023Updated 3 years ago
- Bare Metal GPUs on DigitalOcean Gradient AI • AdPurpose-built for serious AI teams training foundational models, running large-scale inference, and pushing the boundaries of what's possible.
- Fasten toolkit, for streaming operations on fastq files☆82Oct 24, 2025Updated 9 months ago
- Plasmid and antimicrobial resistance pipeline☆16Apr 30, 2026Updated 3 months ago
- The Genomic Epidemiology Application Ontology describes the genomics, laboratory, clinical and epidemiological contextual information req…☆25Jul 11, 2026Updated last month
- de Bruijn graph cOrrectiOn from graph aLignment☆11Jul 20, 2020Updated 6 years ago
- SeqSero2☆41Oct 1, 2025Updated 10 months ago
- whole genome MLST analysis☆55Jun 17, 2026Updated 2 months ago
- gTaxon - a fast cross-platform NCBI taxonomy data querying (gi2taxid, taxid2taxon, name2taxid, LCA) tool, with cmd client and REST API se…☆14Jul 24, 2016Updated 10 years ago
- Chimera: A Versatile Metagenomic Classification Tool☆21Updated this week
- Assign genotypes to Salmonella Typhi genomes based on VCF files (mapped to Typhi CT18 reference genome)☆30Jul 18, 2025Updated last year
- Open source password manager - Proton Pass • AdSecurely store, share, and autofill your credentials with Proton Pass, the end-to-end encrypted password manager trusted by millions.
- Tool for exploring sequence alignment algorithms☆14Aug 30, 2024Updated last year
- LYVE-SET, a method of using hqSNPs to create a phylogeny, especially for outbreak investigations☆26Aug 26, 2024Updated last year
- Simple and transparent support for compressed files.☆81Updated this week
- Basecalling configuration prediction through FASTQ files☆34Mar 17, 2026Updated 5 months ago
- A placeholder for all my random scripts. Some scripts might eventually graduate and go to their own projects, so don't be surprised if a…☆17Nov 24, 2025Updated 8 months ago
- Compute bottom-s sketches and s-buckets sketches, using simd-minimizers crate.☆21May 31, 2026Updated 2 months ago
- MUMmer3☆17Jan 12, 2022Updated 4 years ago