Influenza genome analysis Nextflow workflow
☆33Sep 15, 2025Updated last year
Alternatives and similar repositories for nf-flu
Users that are interested in nf-flu are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- ☆22Jun 1, 2026Updated 3 months ago
- A Nextflow pipeline for viral genomics (Influenza/RSV) supporting Illumina and Nanopore sequencing of clinical and wastewater samples.☆10Jun 9, 2026Updated 3 months ago
- MIRA: Portable, Interactive Application for High-Quality Influenza, SARS-CoV-2 and RSV Genome Assembly, Annotation, and Curation☆25Updated this week
- Design degenerated primers on highly variable alignments for full genome sequencing or qPCR. Specifically developed for viruses.☆56Mar 23, 2026Updated 5 months ago
- INSaFLU-TELEVIR: an free web-based (but also locally installable) bioinformatics suite for virus metagenomic detection and routine genomi…☆43Aug 28, 2026Updated 3 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.
- VGEA (Viral Genomes Easily Analyzed) is a pipeline for analysis of RNA virus next-generation sequencing data.☆19Sep 12, 2021Updated 5 years ago
- TADA - Targeted Amplicon Diversity Analysis - a DADA2-focused Nextflow workflow for any targeted amplicon region☆22Sep 9, 2026Updated last week
- Java software to analyse phylogeny-trait correlations in discrete traits, accounting for phylogenetic uncertainty via posterior sampling.☆14Sep 26, 2017Updated 8 years ago
- Influenza genome analysis Nextflow workflow☆28Jun 3, 2026Updated 3 months ago
- A pipeline for comprehensive genomic analyses of Mycobacterium tuberculosis with a focus on clinical decision making as well as research☆20Aug 10, 2026Updated last month
- Consensus sequences for U.S. H5N1 clade 2.3.4.4b☆39Updated this week
- TaxTriage is a Nextflow workflow designed to agnostically identify and give confidences of microbial organisms within short- or long-read…☆81Updated this week
- Collection of R scripts for SARS-CoV-2 (variant) analyses☆12Mar 2, 2023Updated 3 years ago
- ☆16Jun 30, 2021Updated 5 years ago
- Managed hosting for WordPress and PHP on Cloudways • AdManaged hosting for WordPress, Magento, Laravel, or PHP apps, on multiple cloud providers. Deploy in minutes on Cloudways by DigitalOcean.
- Mycobacterium tuberculosis genomic analysis from Nanopore sequencing data☆15Jun 5, 2026Updated 3 months ago
- Full-length de novo viral haplotype reconstruction from noisy long reads☆22Nov 6, 2023Updated 2 years ago
- Repository containing a method for automatically identifying pathogen lineages from a phylogeny.☆17May 19, 2023Updated 3 years ago
- A simple nextflow pipeline for running kraken2 and bracken in a docker container☆22Oct 8, 2025Updated 11 months ago
- Scripts. config, and snakefiles for seasonal-flu nextstrain builds☆64Updated this week
- Integrating influenza antigenic dynamics with molecular evolution☆12May 28, 2015Updated 11 years ago
- Influenza data pipeline to automate genotyping assignment☆45Sep 10, 2026Updated last week
- A microbial genomic analysis pipeline used by the Djordjevic Lab☆14Feb 9, 2025Updated last year
- ☆30Updated this week
- 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.
- Virus reassortment inference software. Infers both recent and ancestral reassortment and uses flexible molecular clock constraints.☆23Sep 29, 2025Updated 11 months ago
- SARS-CoV-2: detecting recombinations in viruses using large data sets with high sequence similarity☆13Aug 14, 2023Updated 3 years ago
- Olivar: towards automated variant aware primer design for multiplex tiled amplicon sequencing of pathogens☆42Apr 6, 2026Updated 5 months ago
- A package for designing activity-informed nucleic acid diagnostics for viruses.☆34Feb 14, 2023Updated 3 years ago
- A streamlined workflow and GUI for real-time species identification and pathogen characterization via nanopore sequencing data. Engineere…☆21Updated this week
- Retrieve HIVdb algorithm as XML and apply locally to HIV sequences☆14Aug 13, 2026Updated last month
- Real-time analysis pipeline for nanopore 16S rRNA data☆15Nov 29, 2022Updated 3 years ago
- Reference-based consensus creation☆61Updated this week
- Package to design primers for MutaSeq and related methods☆11Jan 15, 2021Updated 5 years ago
- 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.
- A Nextflow pipeline for running the ARTIC network's fieldbioinformatics tools (https://github.com/artic-network/fieldbioinformatics), wit…☆92Nov 8, 2023Updated 2 years ago
- Predicting Future Influenza Virus Sequences with Machine Learning☆32Feb 11, 2018Updated 8 years ago
- viralComplete: BLAST-based viral completeness verification☆23Oct 4, 2021Updated 4 years ago
- Dockerfiles and documentation on tools for public health bioinformatics☆226Updated this week
- The Whole Genome Sequencing Coverage Plot (wgscovplot) is a tool to generate HTML Interactive Coverage Plot given coverage depth informat…☆19May 3, 2024Updated 2 years ago
- High-quality Nanopore-only genome polisher☆71Aug 16, 2024Updated 2 years ago
- MUMmer3☆17Jan 12, 2022Updated 4 years ago