Dockerfiles and documentation on tools for public health bioinformatics
☆226Sep 18, 2026Updated this week
Alternatives and similar repositories for docker-builds
Users that are interested in docker-builds are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- UPHL's Reference Free Pipeline☆29Sep 4, 2026Updated 2 weeks ago
- ☆28Aug 2, 2023Updated 3 years ago
- Bioinformatics workflows for genomic characterization, submission preparation, and genomic epidemiology of pathogens of public health con…☆68Updated this week
- Assembly of Nanopore Sequencing☆17Sep 1, 2026Updated 2 weeks ago
- Reference-based consensus creation☆61Updated 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.
- 🧬 💻 TOSTADAS → Toolkit for Open Sequence Triage, Annotation and DAtabase Submission☆29Sep 3, 2026Updated 2 weeks ago
- MycoSNP: Whole Genome Sequencing Analysis of Fungal Isolates☆96Jul 23, 2026Updated last month
- 🔥🐦🔥PHoeNIx: a platform agnostic pipeline for healthcare-associated and antimicrobial resistant pathogens☆112Updated this week
- Bioinformatics workflows for genomic characterization, submission preparation, and genomic epidemiology of viral pathogens of concern, es…☆42Aug 5, 2024Updated 2 years ago
- Bacterial surveillance pipeline.☆30Updated this week
- Viral (meta)-genome assembly pipeline.☆23Sep 8, 2026Updated last week
- A simple pipeline for bacterial assembly and quality control☆17Updated this week
- A Nextflow pipeline for viral genomics (Influenza/RSV) supporting Illumina and Nanopore sequencing of clinical and wastewater samples.☆10Jun 9, 2026Updated 3 months ago
- Spriggan is a pipeline used for assembly of bacterial whole genome sequence data and identification of antibiotic resistance genes.☆16Sep 8, 2026Updated last week
- Wordpress hosting with auto-scaling - Free Trial Offer • AdFully Managed hosting for WordPress and WooCommerce businesses that need reliable, auto-scalable performance. Cloudways SafeUpdates now available.
- Python Toolkit for using containerized programs in either Singularity or Docker☆31Mar 19, 2024Updated 2 years ago
- QC cutoffs for different genomes.☆18May 28, 2026Updated 3 months ago
- Influenza genome analysis Nextflow workflow☆33Sep 15, 2025Updated 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
- The tool for in silico serotyping☆65Updated this week
- Assemble bacterial isolate genomes from Nanopore reads☆136Jan 22, 2025Updated last year
- A tool easily taken advantage of for in silico serogrouping of Pseudomonas aeruginosa isolates☆15Aug 26, 2024Updated 2 years ago
- A Python package to update the MLST database for the mlst tool.☆33Jul 22, 2026Updated last month
- ☆10Apr 16, 2025Updated last year
- Deploy open-source AI quickly and easily - Special Bonus Offer • AdRunpod Hub is built for open source. One-click deployment and autoscaling endpoints without provisioning your own infrastructure.
- Output FASTQ summary statistics in JSON format☆29Oct 30, 2022Updated 3 years ago
- Standard database for the TBProfiler tool☆31Jun 23, 2026Updated 2 months ago
- Variant calling pipeline designed for Q20+ ONT long-reads☆15Sep 14, 2026Updated last week
- emm Automatic Isolate Labeller☆16Mar 25, 2025Updated last year
- LYVE-SET, a method of using hqSNPs to create a phylogeny, especially for outbreak investigations☆26Aug 26, 2024Updated 2 years ago
- µbinfie blog☆19Jul 21, 2025Updated last year
- Dryad is a Nextflow pipeline for examining prokaryote relatedness. Dryad can perform a reference free analysis and/or SNP analysis.☆21Sep 8, 2026Updated last week
- A methodology to rapidly leverage whole genome sequencing of bacterial isolates for clinical identification.☆36Aug 11, 2026Updated last month
- ☆24Sep 3, 2026Updated 2 weeks ago
- Managed Database hosting by DigitalOcean • AdPostgreSQL, MySQL, MongoDB, Kafka, Valkey, and OpenSearch available. Automatically scale up storage and focus on building your apps.
- Profiling tool for Mycobacterium tuberculosis to detect ressistance and strain type from WGS data☆140Updated this week
- A Nextflow pipeline for running the ARTIC network's fieldbioinformatics tools (https://github.com/artic-network/fieldbioinformatics), wit…☆92Nov 8, 2023Updated 2 years ago
- Parse multiple Antimicrobial Resistance Analysis Reports into a common data structure☆183Aug 10, 2026Updated last month
- Quasitools is a collection of tools for analysing viral quasispecies data.☆27Nov 25, 2021Updated 4 years ago
- Antibiotic resistance prediction in minutes☆122Mar 27, 2026Updated 5 months ago
- Fasten toolkit, for streaming operations on fastq files☆86Sep 10, 2026Updated last week
- Extract subsets of ONT (Nanopore) reads based on time☆26Sep 12, 2024Updated 2 years ago