Files and methodology pertaining to the sequencing and analysis of SARS-CoV-2, causative agent of COVID-19.
☆32Apr 10, 2026Updated 4 months ago
Alternatives and similar repositories for covid-19-signal
Users that are interested in covid-19-signal are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- BACTpipe: An assembly and annotation pipeline for bacterial genomics☆20Dec 3, 2024Updated last year
- Influenza genome analysis Nextflow workflow☆27Jun 3, 2026Updated 2 months ago
- ☆51Mar 11, 2022Updated 4 years ago
- Ultrafast sequence typing and gene detection from NGS raw reads☆20Apr 15, 2021Updated 5 years ago
- A Nextflow pipeline for running the ARTIC network's fieldbioinformatics tools (https://github.com/artic-network/fieldbioinformatics), wit…☆92Nov 8, 2023Updated 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.
- Rapidly subtype microbial genomes using single-nucleotide variant (SNV) subtyping schemes☆28Dec 9, 2024Updated last year
- Small collection of tools for performing quality control on coronavirus sequencing data and genomes☆49May 14, 2026Updated 2 months ago
- real-time stream processing of DNA nanopore sequencer reads with dataflow☆27Jan 9, 2023Updated 3 years ago
- Efficient and comprehensive metadata acquisition from the NCBI databases (includes SRA).☆55May 25, 2022Updated 4 years ago
- Bioinformatics pipeline for SARS-CoV-2 sequencing at CZ Biohub☆25Mar 26, 2022Updated 4 years ago
- IRIDA Next☆15Updated this week
- A mapping-based pipeline for creating a phylogeny from bacterial whole genome sequences☆67Jul 27, 2026Updated 2 weeks ago
- The MLST pipeline developed by the PathOGiST research group☆39Nov 29, 2023Updated 2 years ago
- all methods related to Enterobase☆44Sep 4, 2024Updated last year
- 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.
- REcombination BARcode detector.☆16Apr 2, 2024Updated 2 years ago
- Coalescent simulation and likelihood for phylodynamic inference☆16May 15, 2025Updated last year
- Variant call verification☆19May 12, 2025Updated last year
- Benchmark datasets for WGS analysis of SARS-CoV-2. (https://peerj.com/articles/13821/)☆62Mar 23, 2023Updated 3 years ago
- Utility to alias and dealias pango lineages☆23Dec 18, 2023Updated 2 years ago
- Global phylogenies of SARS-CoV-2 sequences☆86Oct 24, 2023Updated 2 years ago
- iVar is a computational package that contains functions broadly useful for viral amplicon-based sequencing.☆137Updated this week
- A tool easily taken advantage of for in silico serogrouping of Pseudomonas aeruginosa isolates☆15Aug 26, 2024Updated last year
- Histosketching Using Little Kmers☆56May 25, 2023Updated 3 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.
- A simple nextflow pipeline for running kraken2 and bracken in a docker container☆22Oct 8, 2025Updated 10 months ago
- Northern Arizona SNP Pipeline☆20Oct 29, 2024Updated last year
- Ultrafast Sample Placement on Existing Trees☆140Jun 1, 2026Updated 2 months ago
- Visualisation application for Klebsiella genotypes generated by Kleborate.☆10Mar 10, 2026Updated 5 months ago
- Detect interesting SARS-CoV-2 spike protein variants from Sanger sequencing data.☆11Apr 15, 2022Updated 4 years ago
- In silico taxonomic classification of Bacillus cereus group genomes using whole-genome sequencing data☆26May 8, 2024Updated 2 years ago
- Nextflow plugin implementation skeleton☆11Sep 1, 2025Updated 11 months ago
- ☆27Aug 2, 2023Updated 3 years ago
- Bacterial Operon Finder for Functional Organization☆15Nov 14, 2023Updated 2 years ago
- Managed Database hosting by DigitalOcean • AdPostgreSQL, MySQL, MongoDB, Kafka, Valkey, and OpenSearch available. Automatically scale up storage and focus on building your apps.
- Official place for proposals and details around monkeypox virus lineage designations☆23Jul 7, 2026Updated last month
- taxonomic classifier based on the kraken2 algorithms and more☆46Dec 12, 2025Updated 7 months ago
- Repo for Proksee Cmd Line Tools☆30Feb 22, 2023Updated 3 years ago
- Reference Phylogeny for Bacterial and Archaeal Genomes☆25Aug 9, 2025Updated last year
- Systematic ProtEin AnnotatoR☆19Sep 20, 2025Updated 10 months ago
- Get microbial sequence data easier and faster☆29Nov 7, 2019Updated 6 years ago
- Cython API for the Mutation Annotated Tree (MAT) Online Phylogenetics Toolkit☆14May 28, 2025Updated last year