MIRA: Portable, Interactive Application for High-Quality Influenza, SARS-CoV-2 and RSV Genome Assembly, Annotation, and Curation
☆23Mar 13, 2026Updated last week
Alternatives and similar repositories for MIRA
Users that are interested in MIRA are comparing it to the libraries listed below
Sorting:
- SC2 variant detection and composition pipeline☆19Jul 14, 2023Updated 2 years ago
- Influenza genome analysis Nextflow workflow☆31Sep 15, 2025Updated 6 months ago
- Datasets for https://github.com/nextstrain/nextclade☆44Mar 6, 2026Updated 2 weeks ago
- Spriggan is a pipeline used for assembly of bacterial whole genome sequence data and identification of antibiotic resistance genes.☆16Updated this week
- Script that labels phylogenetic clades based on the clade of the nearest neighbor using patristic distances determined from the tree.☆15Dec 11, 2024Updated last year
- Surveillance of pathogens using population genomics and sequencing☆59Feb 13, 2026Updated last month
- Data repository for NWSS☆19Feb 18, 2026Updated last month
- Phylogenetic maximum representation sampling: choosing most representative strains or taxa☆40Sep 23, 2025Updated 5 months ago
- Repo for PrimerSchemes☆17Feb 24, 2026Updated 3 weeks ago
- Primalscheme3. Generation of highly multiplex primerschemes☆22Dec 4, 2025Updated 3 months ago
- ☆10Apr 16, 2025Updated 11 months ago
- Renders SVG schema of SARS-CoV-2 clade as defined by Nextstrain☆17Nov 24, 2025Updated 3 months ago
- The R package 'phylosamp' implements novel tools that estimate the probability of transmission between two cases given phylogenetic linka…☆13May 23, 2023Updated 2 years ago
- A Nextflow pipeline for running the ARTIC network's fieldbioinformatics tools (https://github.com/artic-network/fieldbioinformatics), wit…☆91Nov 8, 2023Updated 2 years ago
- 🧬 💻 TOSTADAS → Toolkit for Open Sequence Triage, Annotation and DAtabase Submission☆28Mar 10, 2026Updated last week
- Nextstrain build for avian influenza viruses☆27Feb 13, 2026Updated last month
- Static website for the PH4AGE alliance☆13Oct 27, 2023Updated 2 years ago
- ☆21Feb 12, 2026Updated last month
- ☆21Jan 23, 2026Updated last month
- Rapid identification of Staphylococcus aureus agr locus type and agr operon variants.☆10Jan 6, 2023Updated 3 years ago
- tool to determine optimal refrerence genome given a set of fasta files☆15May 18, 2023Updated 2 years ago
- Simple Manipulation Of Trees☆13Aug 16, 2025Updated 7 months ago
- ARTIC SARS-CoV-2 workflow and reporting☆50Apr 25, 2025Updated 10 months ago
- Depth-weighted De-Mixing☆128Updated this week
- Rails application for storing and parsing clinical exome VCF files. Gene annotations can be retrieved via Biomart integration from Ensemb…☆10May 7, 2017Updated 8 years ago
- A tool easily taken advantage of for in silico serogrouping of Pseudomonas aeruginosa isolates☆14Aug 26, 2024Updated last year
- 🔥🐦🔥PHoeNIx: a platform agnostic pipeline for healthcare-associated and antimicrobial resistant pathogens☆97Updated this week
- A Nextflow pipeline for viral genomics (Influenza/RSV) supporting Illumina and Nanopore sequencing of clinical and wastewater samples.☆10Feb 27, 2026Updated 3 weeks ago
- INSaFLU-TELEVIR: an free web-based (but also locally installable) bioinformatics suite for virus metagenomic detection and routine genomi…☆41Feb 26, 2026Updated 3 weeks ago
- Real-time analysis pipeline for nanopore 16S rRNA data☆15Nov 29, 2022Updated 3 years ago
- A pipeline to run and systematically evaluate Multiple Sequence Alignment (MSA) methods.☆40Nov 20, 2025Updated 4 months ago
- interactive phylogenetic tree viewer☆11Jun 26, 2024Updated last year
- Plasmid and antimicrobial resistance pipeline☆16Dec 30, 2024Updated last year
- The Nextstrain command-line interface (CLI)—a program called nextstrain—which aims to provide a consistent way to run and visualize patho…☆28Updated this week
- MycoSNP: Whole Genome Sequencing Analysis of Fungal Isolates☆89Mar 10, 2026Updated last week
- ☆17Dec 4, 2025Updated 3 months ago
- Miscellaneous helper tools for epidemiologists☆10Nov 9, 2025Updated 4 months ago
- Variant Annotation, Segregation and Exclusion for family or cohort based rare-disease sequencing studies.☆12Jun 2, 2022Updated 3 years ago
- Seave is a web platform that enables genetic variants to be easily filtered and annotated with in silico pathogenicity prediction scores …☆16Aug 9, 2018Updated 7 years ago