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Phage / pathogen reads

Can a method recognize phage or pathogen sequences beyond its references?

0 evaluations · 0 metric rows

At a glance

Explanatory profile: limited source coverage · Automated source review, 2026-09-16. This does not change the review status of its results.

Data, procedure and scoring
PropertyDescription and evidence
Record typeGeneric task; proposed designProkBERT official resource; METAGENE-1 official resource; Kraken2 official resource · Catalogue task scope and proposed comparison design; concrete source protocol has not yet been extracted
InputsClassify held-out phage or pathogen sequences and record taxonomic distance.ProkBERT official resource; METAGENE-1 official resource; Kraken2 official resource · Catalogue task scope and proposed comparison design; concrete source protocol has not yet been extracted
AssessmentNo single dataset, split or scoring implementation is fixed by this task recordProkBERT official resource; METAGENE-1 official resource; Kraken2 official resource · Catalogue task scope and proposed comparison design; concrete source protocol has not yet been extracted
DatasetsNot extracted or verified for this record.
OrganismsNot extracted or verified for this record.
AssaysNot extracted or verified for this record.
SplitsNot extracted or verified for this record.
AdaptationNot extracted or verified for this record.
BaselinesNot extracted or verified for this record.

How it works

Proposed evaluation design

Conceptual design only. This generic task has no fixed executable protocol and does not imply a completed run.

Proposed evaluation designDefine reads and reference cutoff. Then: Withhold target taxa. Then: Classify sequence fragments. Then: Report rank and coverageDefine reads and referencecutoffWithhold target taxaClassify sequence fragmentsReport rank and coverage
Read the diagram as text
  1. Define reads and reference cutoff
  2. Withhold target taxa
  3. Classify sequence fragments
  4. Report rank and coverage
ProkBERT official resource; METAGENE-1 official resource; Kraken2 official resource · Catalogue task scope and proposed comparison design; concrete source protocol has not yet been extracted

Proposed comparison design

Record sequence length, sequencing error, taxonomic distance and reference-database cutoff, then assess the intended classification level.

ProkBERT official resource; METAGENE-1 official resource; Kraken2 official resource · Catalogue task scope and proposed comparison design; concrete source protocol has not yet been extracted

Tested models and results

Release 2026-09-16-d74d282221a9 · 0 evaluations · 0 metric rows. Different protocols are not a single leaderboard.

No evaluations linked in this release.

Strengths and limitations

Profile review details

Catalogue extraction inspected; protocol claims remain limited to the cited evidence. Missing details are not presumed absent from the original paper.

Stable record: catalog-task-phage-pathogen-reads

Applicable tests and references

Applicability is distinct from a completed evaluation.

Sources and history

Release 2026-09-16-d74d282221a9 · Record review: discovered

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Technical metadata and extraction receipts

Stable ID: catalog-task-phage-pathogen-reads

areas
microbes-communities
entity level
task
version
Not reported
task
Phage / pathogen reads
scope note
Classify held-out phage or pathogen sequences and record taxonomic distance.
missing metadata
protocol version: not_yet_extracted
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