Nextflow Pipeline for processing Streptococcus pneumoniae sequencing raw reads (FASTQ files) by the GPS Project (Global Pneumococcal Sequencing Project)
☆23Jun 5, 2026Updated last month
Alternatives and similar repositories for gps-pipeline
Users that are interested in gps-pipeline are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- Scripts and reference files to type Group A Streptococcus☆11Apr 1, 2026Updated 3 months ago
- ☆28May 22, 2025Updated last year
- emm Automatic Isolate Labeller☆15Mar 25, 2025Updated last year
- A Nextflow pipeline for viral genomics (Influenza/RSV) supporting Illumina and Nanopore sequencing of clinical and wastewater samples.☆10Jun 9, 2026Updated last month
- Variant calling pipeline designed for Q20+ ONT long-reads☆15Jan 23, 2026Updated 6 months ago
- 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.
- Static website for the PH4AGE alliance☆13Oct 27, 2023Updated 2 years ago
- NCBI Pathogen Detection Portal toolkit☆11Sep 6, 2023Updated 2 years ago
- ☆22Updated this week
- Archived - please see updated sccmec tool at link below☆13Aug 30, 2024Updated last year
- A methodology to rapidly leverage whole genome sequencing of bacterial isolates for clinical identification.☆35Jul 11, 2026Updated 2 weeks ago
- Population analysis PIPEline 🛠🧬☆25Mar 2, 2026Updated 4 months ago
- A Python package to update the MLST database for the mlst tool.☆29Jul 22, 2026Updated last week
- QA/QC pipeline for a MiSeq/HiSeq/Ion Torrent/assembly-only run☆12Dec 2, 2024Updated last year
- Sketch-based surveillance platform☆14Updated this week
- 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.
- app to collapse Pango lineages for reporting☆13Dec 9, 2025Updated 7 months ago
- 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
- Genome browser 🧬👀🚀☆34Jun 14, 2026Updated last month
- VarSkip multiplex PCR designs for SARS-CoV-2 sequencing☆15Jun 14, 2022Updated 4 years ago
- Repo for PrimerSchemes☆19Jul 6, 2026Updated 3 weeks ago
- Pneumococcal Capsular Typing tool for NGS data☆18Apr 6, 2021Updated 5 years ago
- Surveillance of pathogens using population genomics and sequencing☆61Updated this week
- Code Safety Inspection Service☆20Sep 23, 2022Updated 3 years ago
- Plasmid annotation pipeline☆17Oct 1, 2025Updated 9 months ago
- Proton VPN Special Offer - Get 70% off • AdSpecial partner offer. Trusted by over 100 million users worldwide. Tested, Approved and Recommended by Experts.
- International BioHackathon Directory of Events, Projects and Communities☆12Jul 7, 2026Updated 3 weeks ago
- Indels are not ideal - quick test for interrupted ORFs in bacterial/microbial genomes☆54May 16, 2023Updated 3 years ago
- ☆32Nov 2, 2023Updated 2 years ago
- Simple-to-use interactive comparison of two bacterial genomes☆28Jan 30, 2026Updated 5 months ago
- MycoSNP: Whole Genome Sequencing Analysis of Fungal Isolates☆93Jul 23, 2026Updated last week
- A tool in order to accurately remove primer sequences from NGS reads in an amplicon experiment☆20Nov 12, 2025Updated 8 months ago
- ☆13Updated this week
- Ultra-rapid detection of viral variants directly from sequencing data☆46Updated this week
- Spriggan is a pipeline used for assembly of bacterial whole genome sequence data and identification of antibiotic resistance genes.☆16Jul 9, 2026Updated 2 weeks 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.
- Dockerfiles and documentation on tools for public health bioinformatics☆225Updated this week
- MAGScoT - a MAG scoring and refinement tool☆48Apr 8, 2026Updated 3 months ago
- Reorients assembled microbial sequences☆143Jun 30, 2026Updated last month
- ☆23Jul 22, 2026Updated last week
- StxTyper uses a standardized algorithm to accurately type both known and unknown Shiga toxin operons from assembled genomic sequence.☆18Apr 22, 2026Updated 3 months ago
- Machine learning use cases for teaching☆13Jul 12, 2017Updated 9 years ago
- Utility to alias and dealias pango lineages☆23Dec 18, 2023Updated 2 years ago