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Benchmark

Short-read versus host-depleted nanopore mNGS on BALF (Hu et al. 2026)

Two clinical metagenomic workflows scored at organism level against culture, clinical microbiological tests and a composite reference standard.

Results are recorded on the linked protocols, tasks or configurations listed below. Their settings and evaluations are kept separate.

3 protocols with results

Overview

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Consult the linked sources for architecture or protocol details. Missing evidence is not evidence of a missing capability.

Results on linked records

This benchmark has no results of its own in this release. 3 linked records have results. They are not assigned to the underlying benchmark: each record keeps its own settings and evaluations, and its scores are on its own page.

Methods and evaluation design

Procedure, tasks and evaluated configurations

Baseline coverage

Reference methods help show what a model adds beyond simple controls. We track a null control and a conventional method for each protocol.

0 of 6 active baseline roles have published Rewire measurements in this release. Measurements on a selected protocol do not establish coverage of an entire suite.

Baseline status by linked protocol

Protocol coverage CSV (gzip) · Model evaluation matrix (gzip) · Source table (gzip) · Release and checksums (gzip)

Coverage is derived from release 2026-10-22-1b7cf027e4f6. Source citations describe the original records; they do not validate an unreviewed baseline proposal. No results have been generated by this audit.

Run instructions

No runnable recipe has been reviewed for this benchmark. Dataset access, model requirements, licences and compute requirements must be checked against its sources before execution.

Strengths, limitations and unresolved questions

Evidence

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Evidence table

Inspect claims, sources and review details

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One row per statement and cited source. Multiple citations are not independent evaluations. Shared locators are labelled explicitly.

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Claims, original sources and review scope · Release 2026-10-22-1b7cf027e4f6
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How to read the evidence

Sources and history

Release 2026-10-22-1b7cf027e4f6 · Record review: source checked

1 source record and release historyDownload this release (gzip)
Technical metadata and extraction receipts

Stable ID: dna-pathogen-20261011-hu2026-benchmark-ngs-tgs-balf

areas
microbes-communities
contexts
clinical_research
entity level
suite
version
Microbiology Spectrum 2026, Table 2 and Supplemental Tables S6 and S7
task
Detect organisms in a BALF specimen and agree with a reference standard
source locator
Methods 'Clinical performance evaluation and reference standards'; Results 'Diagnostic performance for clinical samples'
scope note
Mock-community results (Supplemental Tables S1 and S2, Figures 2 and 3) are per-organism rows and prose aggregates and were not extracted.
limitations
Organism-level agreement, not patient-level diagnosis.
Related records

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