viral-ngs: complete pipelines
☆73Mar 21, 2026Updated last week
Alternatives and similar repositories for viral-pipelines
Users that are interested in viral-pipelines are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- Bioinformatics workflows for genomic characterization, submission preparation, and genomic epidemiology of viral pathogens of concern, es…☆42Aug 5, 2024Updated last year
- Bioinformatics workflows for genomic characterization, submission preparation, and genomic epidemiology of pathogens of public health con…☆61Updated this week
- ☆21Jan 23, 2026Updated 2 months ago
- Experiments with using BIGSI data structure for metagenomic and QC applications☆19Aug 12, 2024Updated last year
- An open-source pathogen sequence database dedicated to equitable sharing, transparent governance, & empowering global public health.☆52Updated this week
- 1-Click AI Models by DigitalOcean Gradient • AdDeploy popular AI models on DigitalOcean Gradient GPU virtual machines with just a single click and start building anything your business needs.
- Official place for proposals and details around monkeypox virus lineage designations☆23Dec 9, 2025Updated 3 months ago
- ☆21Feb 12, 2026Updated last month
- Workflow Description Language developer tools & local runner☆200Feb 8, 2026Updated last month
- ☆27Aug 2, 2023Updated 2 years ago
- Rich IDE support for Workflow Description Language☆43Mar 28, 2025Updated last year
- A Nextflow pipeline for viral genomics (Influenza/RSV) supporting Illumina and Nanopore sequencing of clinical and wastewater samples.☆10Feb 27, 2026Updated last month
- VIGOR4☆21Aug 15, 2025Updated 7 months ago
- Create WDL documentation using Markdown.☆29Nov 25, 2025Updated 4 months ago
- An SRA tool that takes as input local fastq file from a clinical infection sample, identifies and removes any significant human read, and…☆53Jul 24, 2025Updated 8 months ago
- 1-Click AI Models by DigitalOcean Gradient • AdDeploy popular AI models on DigitalOcean Gradient GPU virtual machines with just a single click and start building anything your business needs.
- k-mer based Pipeline to identify the Serotype from Illumina NGS reads☆25Jul 13, 2023Updated 2 years ago
- IRMA (the Iterative Refinement Meta-Assembler) is a highly configurable and adaptive tool for virus genome assembly.☆23Dec 19, 2025Updated 3 months ago
- ☆25Jun 25, 2024Updated last year
- Portable WDL workflows for CZ ID production pipelines☆51Jun 17, 2025Updated 9 months ago
- VirID: An integrated platform for the discovery and characterization of RNA Viruses☆23Jan 8, 2026Updated 2 months ago
- A tool easily taken advantage of for in silico serogrouping of Pseudomonas aeruginosa isolates☆14Aug 26, 2024Updated last year
- viral-ngs: command line tools and wrappers for processing raw viral genomic data☆194Mar 21, 2026Updated last week
- Prepares a SARS-CoV-2 submission for GISAID, NCBI or ENA. Can read GISAID or NCBI files, or plain fasta+tsv/csv/xls. Finds files in input…☆36May 1, 2022Updated 3 years ago
- PiGx SARS-CoV-2 wastewater sequencing pipeline☆18May 3, 2023Updated 2 years ago
- NordVPN Threat Protection Pro™ • AdTake your cybersecurity to the next level. Block phishing, malware, trackers, and ads. Lightweight app that works with all browsers.
- SARS-CoV-2: detecting recombinations in viruses using large data sets with high sequence similarity☆13Aug 14, 2023Updated 2 years ago
- Viral genome alignment, mutation calling, clade assignment, quality checks and phylogenetic placement☆253Mar 17, 2026Updated last week
- Nextflow workflows to assign Salmonella serotype based on Genome similarity using MASH, SOURMASH and KMA.☆13Dec 24, 2025Updated 3 months ago
- Nextflow workflow template repository☆20Mar 12, 2026Updated 2 weeks ago
- Database of virus RdRP barcode sequences☆16Jul 5, 2024Updated last year
- Datasets for https://github.com/nextstrain/nextclade☆45Mar 6, 2026Updated 3 weeks ago
- R Data Exploration for Serratus☆16Mar 29, 2023Updated 3 years ago
- UPHL's Reference Free Pipeline☆28Mar 23, 2026Updated last week
- Output FASTQ summary statistics in JSON format☆29Oct 30, 2022Updated 3 years ago
- GPU virtual machines on DigitalOcean Gradient AI • AdGet to production fast with high-performance AMD and NVIDIA GPUs you can spin up in seconds. The definition of operational simplicity.
- An open-source software package to power microbial genomic databases☆68Updated this week
- Bioinformatics pipeline for SARS-CoV-2 sequencing at CZ Biohub☆25Mar 26, 2022Updated 4 years ago
- Assembly and binning of metagenomes☆282Updated this week
- Pipeline for processing FASTQ data from an Illumina MiSeq to genotype human RNA viruses like HIV and hepatitis C☆19Updated this week
- Warp Analysis Research Pipelines☆225Updated this week
- GATK4 Best Practice Nextflow Pipeline☆33Jan 18, 2018Updated 8 years 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