Nextflow pipeline for species-specific typing of bacteria
☆11Oct 13, 2026Updated 2 weeks ago
Alternatives and similar repositories for basset
Users that are interested in basset are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- Nextflow pipeline for bacterial clustering and linkage detection based on core genome analysis, designed to support genomic surveillance …☆12Jul 2, 2026Updated 3 months ago
- Dryad is a Nextflow pipeline for examining prokaryote relatedness. Dryad can perform a reference free analysis and/or SNP analysis.☆21Oct 19, 2026Updated last week
- A Nextflow pipeline for fast and accurate SNP distance estimation from WGS read data or genome assemblies☆11Jun 11, 2026Updated 4 months ago
- Bacterial surveillance pipeline.☆30Sep 30, 2026Updated 3 weeks ago
- Scripts and reference files to type Group A Streptococcus☆11Aug 31, 2026Updated last month
- 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.
- ☆24Sep 3, 2026Updated last month
- A Nextflow pipeline for viral genomics (Influenza/RSV) supporting Illumina and Nanopore sequencing of clinical and wastewater samples.☆10Jun 9, 2026Updated 4 months ago
- Spriggan is a pipeline used for assembly of bacterial whole genome sequence data and identification of antibiotic resistance genes.☆16Updated this week
- A methodology to rapidly leverage whole genome sequencing of bacterial isolates for clinical identification.☆36Oct 6, 2026Updated 3 weeks ago
- Viral (meta)-genome assembly pipeline.☆24Sep 8, 2026Updated last month
- Dampa: Diversity Aware Metagenomic Panel Assignment☆13Oct 19, 2026Updated last week
- Pipeline for creating comprehensive viral reference sets.☆12Sep 17, 2026Updated last month
- ☆22Oct 20, 2026Updated last week
- Nextflow version of SNVPhyl☆12Oct 24, 2024Updated 2 years ago
- 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.
- emm Automatic Isolate Labeller☆16Mar 25, 2025Updated last year
- ☆10Apr 16, 2025Updated last year
- Nextflow workflows to assign Salmonella serotype based on Genome similarity using MASH, SOURMASH and KMA.☆14Sep 29, 2026Updated 3 weeks ago
- NCBI Pathogen Detection Portal toolkit☆11Sep 6, 2023Updated 3 years ago
- Sketch-based surveillance platform☆13Updated this week
- Benchmark and toy datasets☆12Jan 8, 2025Updated last year
- ☆12Oct 17, 2026Updated last week
- 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
- Python Toolkit for using containerized programs in either Singularity or Docker☆31Mar 19, 2024Updated 2 years ago
- GPUs on demand by Runpod - Special Offer Available • AdRun AI, ML, and HPC workloads on powerful cloud GPUs—without limits or wasted spend. Deploy GPUs in under a minute and pay by the second.
- Extract subsets of ONT (Nanopore) reads based on time☆26Sep 12, 2024Updated 2 years ago
- In silico serotype prediction for Listeria monocytogenes☆11Feb 23, 2026Updated 8 months ago
- Finding regions of similarity between plasmids☆17Jul 15, 2026Updated 3 months ago
- ☆29May 22, 2025Updated last year
- Python bindings to spoa☆22Dec 3, 2025Updated 10 months ago
- 🔥🐦🔥PHoeNIx: a platform agnostic pipeline for healthcare-associated and antimicrobial resistant pathogens☆112Sep 30, 2026Updated 3 weeks ago
- MycoSNP: Whole Genome Sequencing Analysis of Fungal Isolates☆96Jul 23, 2026Updated 3 months ago
- a tool to filter sites in a FASTA-format whole-genome pseudo-alignment☆67Jun 16, 2025Updated last year
- 🧬 💻 TOSTADAS → Toolkit for Open Sequence Triage, Annotation and DAtabase Submission☆29Oct 20, 2026Updated last week
- 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.
- Materials for the STAMPS 2024 course at the MBL in Woods Hole, MA, USA☆13Jul 25, 2024Updated 2 years ago
- A tool for typing SCCmec cassettes in assemblies☆13Aug 25, 2024Updated 2 years ago
- Plasmid analysis using rearrangement distances☆56Jul 19, 2026Updated 3 months ago
- Software for the Tree-Based Scan Statistic☆17Oct 13, 2026Updated 2 weeks ago
- A pipeline for bioinformatics analysis of bacterial genomes☆33Oct 5, 2026Updated 3 weeks ago
- Databases for wg/cgMLST analysis with the PN2.0 software☆10May 7, 2026Updated 5 months ago
- Bioinformatics workflows for genomic characterization, submission preparation, and genomic epidemiology of viral pathogens of concern, es…☆42Aug 5, 2024Updated 2 years ago