geNomad (Nature Biotechnology 2023)
github.com/apcamargo/genomadHybrid deep learning and alignment-based tool for identifying viruses, plasmids, and other mobile genetic elements in isolates, metagenomes, and metatranscriptomes, combining neural-network gene-content classifiers with nucleotide-sequence signatures; also performs viral taxonomic assignment, provirus detection in host genomes, and functional annotation, with precomputed databases of 200K+ viral and 1M+ plasmid genomes and web apps on Galaxy and NMDC EDGE (Berkeley Lab & DOE Joint Genome Institute, 334+ stars, actively maintained)
Sourced from
- Awesome AI for Science — github.com/apcamargo/genomad
- GitHub — github.com/apcamargo/genomad
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