Model type
Study-specific predictive method; this record is the paper-specific evaluated configuration.
Configuration
kMetaShot
kMetaShot assigns taxonomy to metagenome-assembled genomes using k-mer/minimizer counts.
Sources
kMetaShot: a fast and reliable taxonomy classifier for metagenome-assembled genomes · Materials and methods (paragraph 1); Materials and methods/kMetaShot reference module (paragraph 7)How it worksEvaluated procedure (conceptual)
Conceptual input–method–output guide. Check the procedure text and linked evaluation for fitted components, additional inputs and exact settings.
Sources
kMetaShot: a fast and reliable taxonomy classifier for metagenome-assembled genomes · Abstract (paragraph 1); Materials and methods (paragraph 1)At a glance
Biological inputs
Metagenome-assembled genomes
Sources
kMetaShot: a fast and reliable taxonomy classifier for metagenome-assembled genomes · Abstract (paragraph 1); Materials and methods/kMetaShot benchmarking on a real dataset (paragraph 1)Outputs
Taxonomic assignments
Sources
kMetaShot: a fast and reliable taxonomy classifier for metagenome-assembled genomes · Materials and methods/Taxonomic classification algorithm (paragraph 5); Materials and methods/Taxonomic classification algorithm (paragraph 3)limited source coverage · Automated source review, 2026-09-16. All specifications and missing details
Evaluations and results
Release 2026-09-17-d277315f7d76 · 1 evaluation · 1 metric row. Different protocols are not a single leaderboard.
| Metric and finding | Coverage and uncertainty | Evidence |
|---|---|---|
| kMetaShot: Mock-community MAG taxonomy classification Configuration: kMetaShotTask: Mock-community MAG taxonomy classificationDataset: Real mock community MAGs Genus classification of MAGs from MegaHIT contigs; uncorrected kMetaShot. Author-reported evaluation · Evaluation metadata: needs review | ||
| 95.83 Genus-level F1 Unit: % · Direction: unknown | Uncertainty: not reported in legacy extract Scored: Not reported · Eligible: Not reported | source checkedkMetaShot: a fast and reliable taxonomy classifier for metagenome-assembled genomes · Table 2, F1-score % row, Genus kMS column Source checking is not independent reproduction. |
How it works
How the evaluated method works
The classifier aggregates k-mer/minimizer evidence for assembled microbial genomes, providing a comparatively concise alternative to marker-identification and alignment workflows.
Sources
kMetaShot: a fast and reliable taxonomy classifier for metagenome-assembled genomes · Abstract (paragraph 1); Materials and methods (paragraph 1)What was evaluated
The linked evaluation record identifies kMetaShot: Mock-community MAG taxonomy classification. Its dataset, split, adaptation and evidence origin remain attached to the reported results.
Sources
kMetaShot: a fast and reliable taxonomy classifier for metagenome-assembled genomes · The named evaluation’s methods and comparison table; exact preserved evaluation IDs: evaluation-lit-b3-029Strengths and limitations
Strengths and considerations
- Evaluates both simulated and real mock-community genomes.
Sources
kMetaShot: a fast and reliable taxonomy classifier for metagenome-assembled genomes · Materials and methods (paragraph 2); Materials and methods/kMetaShot benchmarking on a real dataset (paragraph 1)
Limitations and conditions
- Genome assembly quality and reference-taxonomy coverage are part of the classification problem; performance on MAGs is not interchangeable with raw-read classification.
Sources
kMetaShot: a fast and reliable taxonomy classifier for metagenome-assembled genomes · Materials and methods/kMetaShot testing on Human Microbiome Project genomes (paragraph 1); Introduction (paragraph 3)
Profile review details
Primary full text and the available official implementation/model documentation were inspected. Explanatory claims are source-backed; unresolved exact-configuration metadata is labelled explicitly. This is automated review, not a human review or independent benchmark reproduction.
Stable record: reported-model-790768ed581685Specifications
Inputs, training, access and other details
Explanatory profile: limited source coverage · Automated source review, 2026-09-16. Review applies to the cited claims; unresolved fields are listed below. Numerical results retain their own review status.
| Property | Description and evidence |
|---|---|
| Model type | Study-specific predictive method; this record is the paper-specific evaluated configuration.SourceskMetaShot: a fast and reliable taxonomy classifier for metagenome-assembled genomes · Abstract (paragraph 1); Materials and methods (paragraph 1) |
| Architecture / procedure | The classifier aggregates k-mer/minimizer evidence for assembled microbial genomes, providing a comparatively concise alternative to marker-identification and alignment workflows.SourceskMetaShot: a fast and reliable taxonomy classifier for metagenome-assembled genomes · Abstract (paragraph 1); Materials and methods (paragraph 1) |
| Biological inputs | Metagenome-assembled genomesSourceskMetaShot: a fast and reliable taxonomy classifier for metagenome-assembled genomes · Abstract (paragraph 1); Materials and methods/kMetaShot benchmarking on a real dataset (paragraph 1) |
| Outputs | Taxonomic assignmentsSourceskMetaShot: a fast and reliable taxonomy classifier for metagenome-assembled genomes · Materials and methods/Taxonomic classification algorithm (paragraph 5); Materials and methods/Taxonomic classification algorithm (paragraph 3) |
| Parameters | Not applicable: reference-index matching and taxonomic assignment do not use a neural parameter total. · Not applicableSourceskMetaShot: a fast and reliable taxonomy classifier for metagenome-assembled genomes · Materials and methods/kMetaShot testing on Human Microbiome Project genomes (paragraph 1); Materials and methods/kMetaShot reference module (paragraph 10) |
| Known versions / configuration | kMetaShot is the comparison-table label; that label does not specify an immutable weight revision. · Not reported in inspected sourcesSourceskMetaShot: a fast and reliable taxonomy classifier for metagenome-assembled genomes · Model identification in the comparison table and corresponding Methods; immutable checkpoint revision is not supplied by the table label. |
| Training data / fitting | A minimizer reference is constructed from the supplied genomes; the documented representation uses 61-mers and 31-base minimizers. Reference taxonomy and database release remain separate provenance.SourceskMetaShot: a fast and reliable taxonomy classifier for metagenome-assembled genomes · Materials and methods (paragraph 1); Materials and methods/kMetaShot reference module (paragraph 7) |
| Context limits | Not applicable to a pretrained sequence-token window; read/contig lengths and the reference-database or comparison configuration determine the analysed input. · Not applicableSourceskMetaShot: a fast and reliable taxonomy classifier for metagenome-assembled genomes · Materials and methods/kMetaShot reference module (paragraph 10); Results (paragraph 1) |
| Access | Official study implementation and usage documentation: https://github.com/gdefazio/kMetaShot/blob/95dac648aba94d119d20929478f6c3955206f9d4/README.md. This pinned documentation revision is not automatically the evaluated weight revision.Sourcesgdefazio/kMetaShot README.md · README.md; installation, model download and usage instructions |
| Code licence | GNU GPL version 3 (study repository code at the cited revision; this does not establish every dependency or historical checkpoint licence).Sourcesgdefazio/kMetaShot LICENSE · LICENSE; complete licence text |
| Weights licence | Not applicable to pretrained neural weights; reference-data reuse terms are separate. · Not applicableSourceskMetaShot: a fast and reliable taxonomy classifier for metagenome-assembled genomes · Materials and methods/kMetaShot reference module (paragraph 10); Results (paragraph 1) |
Evidence table
Inspect claims, sources and review details
Trace each statement to its source and review. A context-only reference supports the record generally; it does not verify an individual field. Source checking does not reproduce an experiment.
One row per statement and cited source. Multiple citations are not independent evaluations. Shared locators are labelled explicitly.
19 evidence rows matching the loaded filters
| Property and statement | Original source and location | Review and provenance |
|---|---|---|
| Diagram caption Conceptual input–method–output guide. Check the procedure text and linked evaluation for fitted components, additional inputs and exact settings. Individual claims | kMetaShot: a fast and reliable taxonomy classifier for metagenome-assembled genomes Abstract (paragraph 1); Materials and methods (paragraph 1) Version: PMC archival version PMC11695915.1 | source checked automated source review · 2026-09-16 Audit detailsPrimary full text and the available official implementation/model documentation were inspected. Explanatory claims are source-backed; unresolved exact-configuration metadata is labelled explicitly. This is automated review, not a human review or independent benchmark reproduction. Field: Source artifact SHA-256: Hash scope: Hash scope not separately documented; inspect source record |
| Diagram steps ["Metagenome-assembled genomes","kMetaShot","Taxonomic assignments"] Individual claims | kMetaShot: a fast and reliable taxonomy classifier for metagenome-assembled genomes Abstract (paragraph 1); Materials and methods (paragraph 1) Version: PMC archival version PMC11695915.1 | source checked automated source review · 2026-09-16 Audit detailsPrimary full text and the available official implementation/model documentation were inspected. Explanatory claims are source-backed; unresolved exact-configuration metadata is labelled explicitly. This is automated review, not a human review or independent benchmark reproduction. Field: Source artifact SHA-256: Hash scope: Hash scope not separately documented; inspect source record |
| Diagram title Evaluated procedure (conceptual) Individual claims | kMetaShot: a fast and reliable taxonomy classifier for metagenome-assembled genomes Abstract (paragraph 1); Materials and methods (paragraph 1) Version: PMC archival version PMC11695915.1 | source checked automated source review · 2026-09-16 Audit detailsPrimary full text and the available official implementation/model documentation were inspected. Explanatory claims are source-backed; unresolved exact-configuration metadata is labelled explicitly. This is automated review, not a human review or independent benchmark reproduction. Field: Source artifact SHA-256: Hash scope: Hash scope not separately documented; inspect source record |
| Model type Study-specific predictive method; this record is the paper-specific evaluated configuration. Individual claims | kMetaShot: a fast and reliable taxonomy classifier for metagenome-assembled genomes Abstract (paragraph 1); Materials and methods (paragraph 1) Version: PMC archival version PMC11695915.1 | source checked automated source review · 2026-09-16 Audit detailsPrimary full text and the available official implementation/model documentation were inspected. Explanatory claims are source-backed; unresolved exact-configuration metadata is labelled explicitly. This is automated review, not a human review or independent benchmark reproduction. Field: Source artifact SHA-256: Hash scope: Hash scope not separately documented; inspect source record |
| Architecture / procedure The classifier aggregates k-mer/minimizer evidence for assembled microbial genomes, providing a comparatively concise alternative to marker-identification and alignment workflows. Individual claims | kMetaShot: a fast and reliable taxonomy classifier for metagenome-assembled genomes Abstract (paragraph 1); Materials and methods (paragraph 1) Version: PMC archival version PMC11695915.1 | source checked automated source review · 2026-09-16 Audit detailsPrimary full text and the available official implementation/model documentation were inspected. Explanatory claims are source-backed; unresolved exact-configuration metadata is labelled explicitly. This is automated review, not a human review or independent benchmark reproduction. Field: Source artifact SHA-256: Hash scope: Hash scope not separately documented; inspect source record |
| Weights licence Not applicable to pretrained neural weights; reference-data reuse terms are separate. Individual claims | kMetaShot: a fast and reliable taxonomy classifier for metagenome-assembled genomes Materials and methods/kMetaShot reference module (paragraph 10); Results (paragraph 1) Version: PMC archival version PMC11695915.1 | inapplicable automated source review · 2026-09-16 Audit detailsPrimary full text and the available official implementation/model documentation were inspected. Explanatory claims are source-backed; unresolved exact-configuration metadata is labelled explicitly. This is automated review, not a human review or independent benchmark reproduction. Field: Source artifact SHA-256: Hash scope: Hash scope not separately documented; inspect source record |
| Biological inputs Metagenome-assembled genomes Individual claims | kMetaShot: a fast and reliable taxonomy classifier for metagenome-assembled genomes Abstract (paragraph 1); Materials and methods/kMetaShot benchmarking on a real dataset (paragraph 1) Version: PMC archival version PMC11695915.1 | source checked automated source review · 2026-09-16 Audit detailsPrimary full text and the available official implementation/model documentation were inspected. Explanatory claims are source-backed; unresolved exact-configuration metadata is labelled explicitly. This is automated review, not a human review or independent benchmark reproduction. Field: Source artifact SHA-256: Hash scope: Hash scope not separately documented; inspect source record |
| Outputs Taxonomic assignments Individual claims | kMetaShot: a fast and reliable taxonomy classifier for metagenome-assembled genomes Materials and methods/Taxonomic classification algorithm (paragraph 5); Materials and methods/Taxonomic classification algorithm (paragraph 3) Version: PMC archival version PMC11695915.1 | source checked automated source review · 2026-09-16 Audit detailsPrimary full text and the available official implementation/model documentation were inspected. Explanatory claims are source-backed; unresolved exact-configuration metadata is labelled explicitly. This is automated review, not a human review or independent benchmark reproduction. Field: Source artifact SHA-256: Hash scope: Hash scope not separately documented; inspect source record |
| Parameters Not applicable: reference-index matching and taxonomic assignment do not use a neural parameter total. Individual claims | kMetaShot: a fast and reliable taxonomy classifier for metagenome-assembled genomes Materials and methods/kMetaShot testing on Human Microbiome Project genomes (paragraph 1); Materials and methods/kMetaShot reference module (paragraph 10) Version: PMC archival version PMC11695915.1 | inapplicable automated source review · 2026-09-16 Audit detailsPrimary full text and the available official implementation/model documentation were inspected. Explanatory claims are source-backed; unresolved exact-configuration metadata is labelled explicitly. This is automated review, not a human review or independent benchmark reproduction. Field: Source artifact SHA-256: Hash scope: Hash scope not separately documented; inspect source record |
| Known versions / configuration kMetaShot is the comparison-table label; that label does not specify an immutable weight revision. Individual claims | kMetaShot: a fast and reliable taxonomy classifier for metagenome-assembled genomes Model identification in the comparison table and corresponding Methods; immutable checkpoint revision is not supplied by the table label. Version: PMC archival version PMC11695915.1 | unreported automated source review · 2026-09-16 Audit detailsPrimary full text and the available official implementation/model documentation were inspected. Explanatory claims are source-backed; unresolved exact-configuration metadata is labelled explicitly. This is automated review, not a human review or independent benchmark reproduction. Field: Source artifact SHA-256: Hash scope: Hash scope not separately documented; inspect source record |
Sources and history
Release 2026-09-17-d277315f7d76 · Record review: needs review
3 source records and release history
- kMetaShot: a fast and reliable taxonomy classifier for metagenome-assembled genomes · Original source · PMC archival version PMC11695915.1
- gdefazio/kMetaShot README.md · Original source · 95dac648aba94d119d20929478f6c3955206f9d4
- gdefazio/kMetaShot LICENSE · Original source · 95dac648aba94d119d20929478f6c3955206f9d4
Technical metadata and extraction receipts
Stable ID: reported-model-790768ed581685
- areas
- microbes-communities
- entity level
- method
- version
- Not reported
- reported name
- kMetaShot
- historical missing metadata
- version: not_reported_in_legacy_extract; checkpoint revision: not_reported_in_legacy_extract; training data: not_reported_in_legacy_extract; licence: not_reported_in_legacy_extract
- metadata review scope
- historical_missing_metadata preserves the original discovery state. Current descriptive evidence and missingness are recorded in profile.facts; numerical-result review is separate.
- legacy kinds
- model
- entity classification
- review date: 2026-09-17; rationale: This source-scoped entry preserves the method/configuration actually named in an evaluation. It is neither a global family identity nor proof of an immutable checkpoint; the linked evaluation retains adaptation, fitting and scoring details.; source ids: kmetashot-2025; source locator: Abstract (paragraph 1); Materials and methods (paragraph 1) | Materials and methods (paragraph 1); Materials and methods/kMetaShot reference module (paragraph 7); ambiguities: Configuration means the source-labelled evaluated identity. It does not establish missing checkpoint hashes, default settings or equivalence to same-named records in other papers.