MetageNN (main database, Peres da Silva et al. 2024)
Configuration of MetageNN: Main-database model (capacity about doubled from the small-database model), trained 3 days on four GPUs with early stopping; reads segmented into non-overlapping 1 kbp chunks, majority vote, classified if probability >= 0.5.
Overview
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Consult the linked sources for architecture or protocol details. Missing evidence is not evidence of a missing capability.
Evaluations and results
3 evaluations · 5 results. Different protocols are not a single leaderboard.
Sorted by F1 (genus level; mean across the out-of-database isolates whose genus has more than three species) (higher is better). The best value in each column is highlighted. Decimals are rounded for display; each value links to the printed value and its source.
All 5 result rows with coverage, uncertainty and sources
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How it works, versions and access
Strengths, limitations and unresolved questions
Evidence
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Evidence table
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Sources and history
Release 2026-10-22-1b7cf027e4f6 · Record review: source checked
1 source record and release history
- MetageNN: a memory-efficient neural network taxonomic classifier robust to sequencing errors and missing genomes · Original source · BMC Bioinformatics 25:153, published 2024-04-16; PMC11022314 full-text XML
Technical metadata and extraction receipts
Stable ID: dna-pathogen-20261012-metagenn-config-metagenn
- areas
- microbes-communities
- contexts
- research
- method types
- supervised_machine_learning
- reported name
- MetageNN
- foundation model eligible
- false
- parameters
- Main-database model (capacity about doubled from the small-database model), trained 3 days on four GPUs with early stopping; reads segmented into non-overlapping 1 kbp chunks, majority vote, classified if probability >= 0.5
- source locator
- Results 'MetageNN presents a higher F1 score than GeNet...' Baselines and Experimental setup; Methods 'Databases'
- access reuse
- Tool run by the article's authors; the trained MetageNN model is not linked from the article
- missing metadata
- version: reason: unreported; note: No tool versions are given
- review
- method: source-hash-verification; scope-review; reviewer: claude; reviewer note: Separate Claude review agent (rev-mlvb), independent of the extracting agent; no human review claimed; date: 2026-10-12; artifact sha256: ac4b137508d295d5e04e9be263bef40bdcf2c494e096407e5896611194f14e12; retrieval url: https://www.ebi.ac.uk/europepmc/webservices/rest/PMC11022314/fullTextXML; note: Checked against the re-downloaded article XML (SHA-256 matches).
- provenance note
- MetageNN as run by the MetageNN authors with the 516-genome main database.
Related records
- configuration of: MetageNN
- system: MetageNN on genus-level read classification of ONT bacterial isolates, main database (Peres da Silva et al. 2024)
- system: MetageNN on read classification on 30 ONT pseudo-mock communities of out-of-database species (Peres da Silva et al. 2024)
- system: MetageNN on database storage and classification speed on ONT data, main database (Peres da Silva et al. 2024)