EBI-Metagenomics / emg-viral-pipelineView external linksLinks
VIRify: detection of phages and eukaryotic viruses from metagenomic and metatranscriptomic assemblies
☆146Dec 17, 2025Updated 2 months ago
Alternatives and similar repositories for emg-viral-pipeline
Users that are interested in emg-viral-pipeline are comparing it to the libraries listed below
Sorting:
- A containerized bioinformatics pipeline for viral metagenomic data analysis☆37Aug 4, 2024Updated last year
- Downstream processing of VAMB binning for Viral Elucidation☆54Jul 3, 2024Updated last year
- A wrapper to identify, bin, classify, and predict host-viral relationship for viruses☆87Dec 27, 2024Updated last year
- geNomad: Identification of mobile genetic elements☆289Nov 10, 2025Updated 3 months ago
- Workflow to rapidly quantify taxa from all domains of life, directly from short-read human gut metagenomes☆71Dec 1, 2025Updated 2 months ago
- Accurate metagenomic profiling && Fast large-scale sequence/genome searching☆205Sep 22, 2023Updated 2 years ago
- Systematic search of all known anti-phage systems.☆144Jan 22, 2026Updated 3 weeks ago
- a command line tool for viral proteomic tree generation, part of the ViPTree project: http://www.genome.jp/viptree☆34Sep 20, 2022Updated 3 years ago
- NCBI-style taxdump files for International Committee on Taxonomy of Viruses (ICTV)☆22May 3, 2025Updated 9 months ago
- Virus Identification By iteRative ANnoTation☆185Apr 15, 2024Updated last year
- WtP: Phage identification via nextflow and docker or singularity☆103Feb 2, 2026Updated 2 weeks ago
- Providing up-to-date phage genome databases, metrics and useful input files for a number of bioinformatic pipelines.☆78Apr 16, 2025Updated 10 months ago
- Variational autoencoder for metagenomic binning☆317Feb 2, 2026Updated 2 weeks ago
- customizable pipeline to identify viral sequences from (meta)genomic data☆279Nov 28, 2024Updated last year
- ☆38Dec 6, 2023Updated 2 years ago
- MARVEL: Metagenomic Analyses and Retrieval of Viral ELements☆51Apr 19, 2024Updated last year
- CAT/BAT/RAT: tools for taxonomic classification of contigs and metagenome-assembled genomes (MAGs) and for taxonomic profiling of metage…☆224Jan 20, 2026Updated 3 weeks ago
- 🫧🧬 From fragmented assemblies to high-quality bacteriophage genomes☆81Dec 4, 2025Updated 2 months ago
- Rapid & standardized annotation of bacterial genomes, MAGs & plasmids☆606Feb 9, 2026Updated last week
- Read alignment statistics for metagenomics☆387Jan 16, 2026Updated last month
- A hybrid assembly and MAG recovery pipeline (and more!)☆104Jan 27, 2026Updated 3 weeks ago
- Distilled and Refined Annotation of Metabolism: A tool for the annotation and curation of function for microbial and viral genomes☆319Feb 3, 2026Updated 2 weeks ago
- Reorients assembled microbial sequences☆132Aug 21, 2025Updated 5 months ago
- VirBot: a protein-based RNA virus detector for metagenomic data☆34Jul 29, 2024Updated last year
- Discover and annotate the virome☆58Feb 11, 2026Updated last week
- Universal and efficient structure-based core gene phylogeny with Foldseek and ProstT5☆84Nov 13, 2025Updated 3 months ago
- Cython bindings and Python interface to Prodigal, an ORF finder for genomes and metagenomes. Now with SIMD!☆176Jan 7, 2026Updated last month
- Binning Virus Genomes from Metagenomes☆70Jul 13, 2022Updated 3 years ago
- An updated pipeline for pangenome investigation☆341Jan 15, 2026Updated last month
- Fast, robust ANI and aligned fraction for (metagenomic) genomes and contigs.☆235Oct 12, 2025Updated 4 months ago
- Viral genome coverage evaluation for metagenomic diagnostics☆27Aug 19, 2025Updated 5 months ago
- Scans genome contigs against the ResFinder, PlasmidFinder, and PointFinder databases.☆186Feb 6, 2026Updated last week
- Rapid comparison and dereplication of genomes☆326Nov 10, 2025Updated 3 months ago
- zol (& fai): large-scale targeted detection and evolutionary investigation of gene clusters (i.e. BGCs, phages, etc.)☆71Jan 5, 2026Updated last month
- Mapping NCBI Genbank accession to GTDB accession☆14Feb 13, 2021Updated 5 years ago
- PHANOTATE: a gene caller for phages.☆82Dec 2, 2024Updated last year
- MetaEuk - sensitive, high-throughput gene discovery and annotation for large-scale eukaryotic metagenomics☆202Aug 25, 2025Updated 5 months ago
- Viral Annotation DefineR: classification and annotation of viral sequences based on RefSeq annotation☆114Jan 9, 2026Updated last month
- Improvement of metagenome-assembled genomes☆54Mar 17, 2020Updated 5 years ago