Bioinformatics workflows for genomic characterization, submission preparation, and genomic epidemiology of pathogens of public health concern.
☆62May 21, 2026Updated last week
Alternatives and similar repositories for public_health_bioinformatics
Users that are interested in public_health_bioinformatics are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- ☆27Aug 2, 2023Updated 2 years ago
- Bioinformatics workflows for genomic characterization, submission preparation, and genomic epidemiology of viral pathogens of concern, es…☆42Aug 5, 2024Updated last year
- UPHL's Reference Free Pipeline☆28May 21, 2026Updated last week
- Assembly of Nanopore Sequencing☆17May 21, 2026Updated last week
- Repo for PrimerSchemes☆17May 15, 2026Updated 2 weeks 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.
- 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
- Viral (meta)-genome assembly pipeline.☆23May 11, 2026Updated 2 weeks ago
- A Nextflow pipeline for viral genomics (Influenza/RSV) supporting Illumina and Nanopore sequencing of clinical and wastewater samples.☆10May 15, 2026Updated 2 weeks ago
- TaxTriage is a Nextflow workflow designed to agnostically identify and classify microbial organisms within short- or long-read metagenomi…☆74Updated this week
- Bacterial surveillance pipeline.☆27Apr 28, 2026Updated last month
- Datasets for https://github.com/nextstrain/nextclade☆45May 22, 2026Updated last week
- Bioinformatics pipeline for SARS-CoV-2 sequencing at CZ Biohub☆25Mar 26, 2022Updated 4 years ago
- viral-ngs: complete pipelines☆73May 22, 2026Updated last week
- tool to determine optimal refrerence genome given a set of fasta files☆15May 18, 2023Updated 3 years ago
- 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.
- Automated Pipeline to Generate FTP Files and Manage Submission of Sequence Data to Public Repositories☆39Feb 20, 2026Updated 3 months ago
- ☆22Apr 28, 2026Updated last month
- Software for the Tree-Based Scan Statistic☆16Apr 28, 2026Updated last month
- Reference-based consensus creation☆61May 22, 2026Updated last week
- MycoSNP: Whole Genome Sequencing Analysis of Fungal Isolates☆92Mar 10, 2026Updated 2 months ago
- A tool easily taken advantage of for in silico serogrouping of Pseudomonas aeruginosa isolates☆14Aug 26, 2024Updated last year
- Quasitools is a collection of tools for analysing viral quasispecies data.☆27Nov 25, 2021Updated 4 years ago
- emm Automatic Isolate Labeller☆13Mar 25, 2025Updated last year
- NCBI Pathogen Detection Portal toolkit☆11Sep 6, 2023Updated 2 years ago
- 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.
- ☆22Feb 12, 2026Updated 3 months ago
- Assign genotypes to Salmonella Paratyphi A isolates using their whole-genome data.☆10Mar 6, 2025Updated last year
- Dockerfiles and documentation on tools for public health bioinformatics☆223May 21, 2026Updated last week
- A methodology to rapidly leverage whole genome sequencing of bacterial isolates for clinical identification.☆35Dec 2, 2024Updated last year
- 🔥🐦🔥PHoeNIx: a platform agnostic pipeline for healthcare-associated and antimicrobial resistant pathogens☆104Updated this week
- Influenza data pipeline to automate genotyping assignment☆42Mar 19, 2026Updated 2 months ago
- Depth-weighted De-Mixing☆133May 22, 2026Updated last week
- Bioinformatics Pipeline and Visualization resources☆65Aug 30, 2024Updated last year
- catalog for long-read sequencing tools☆32Feb 14, 2023Updated 3 years ago
- 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.
- VarSkip multiplex PCR designs for SARS-CoV-2 sequencing☆14Jun 14, 2022Updated 3 years ago
- Static website for the PH4AGE alliance☆13Oct 27, 2023Updated 2 years ago
- Finding regions of similarity between plasmids☆17Nov 2, 2022Updated 3 years ago
- Predict MLST directly from uncorrected long reads☆27Oct 31, 2025Updated 6 months ago
- 🧬 💻 TOSTADAS → Toolkit for Open Sequence Triage, Annotation and DAtabase Submission☆29Mar 10, 2026Updated 2 months ago
- The ARTIC fieldbioinformatics pipeline☆133Apr 28, 2026Updated last month
- Benchmark datasets for WGS analysis of SARS-CoV-2. (https://peerj.com/articles/13821/)☆60Mar 23, 2023Updated 3 years ago