Dataset

Species profiling on Dilthey2019 simulated long reads

Dataset and cohort used in the cited comparison. Dataset population counts do not establish successful prediction coverage.

Dataset and evaluation context

A dataset supplies biological observations. The evaluation protocol defines how those observations are split, used and scored.

Evaluation results

Release 2026-09-17-d277315f7d76 · 7 evaluations · 21 metric rows. Different protocols are not a single leaderboard.

Evaluation setupMetricEvidence origin

Results grouped by the exact reported evaluation
Metric and finding	Coverage and uncertainty	Evidence
Sourmash: Species profiling on Dilthey2019 simulated long reads Configuration: SourmashProtocol: Species profiling on Dilthey2019 simulated long reads (Long-read taxonomic profiling)Dataset: Species profiling on Dilthey2019 simulated long reads Species-level recall/precision/F 1. MetaMaps results copied from original manuscript; other tool versions reported in Methods. 200,114 reads;96 strain design,94 strains with RefSeq species representatives; average read 4,997 bp. Independent external evaluation · Evaluation metadata: needs review
0.932 F1 score Unit: fraction · Direction: higher	Uncertainty: unreported Scored: Not reported · Eligible: Not reported	source checkedLightweight taxonomic profiling of long-read metagenomic datasets with Lemur and Magnet · Table 1:, row Sourmash, column F1 score; XML row6 column4 Source checking is not independent reproduction.
0.927 Recall Unit: fraction · Direction: higher	Uncertainty: unreported Scored: Not reported · Eligible: Not reported	source checkedLightweight taxonomic profiling of long-read metagenomic datasets with Lemur and Magnet · Table 1:, row Sourmash, column Recall; XML row6 column2 Source checking is not independent reproduction.
0.938 Precision Unit: fraction · Direction: higher	Uncertainty: unreported Scored: Not reported · Eligible: Not reported	source checkedLightweight taxonomic profiling of long-read metagenomic datasets with Lemur and Magnet · Table 1:, row Sourmash, column Precision; XML row6 column3 Source checking is not independent reproduction.
Lemur + Magnet: Species profiling on Dilthey2019 simulated long reads Configuration: Lemur + MagnetProtocol: Species profiling on Dilthey2019 simulated long reads (Long-read taxonomic profiling)Dataset: Species profiling on Dilthey2019 simulated long reads Species-level recall/precision/F 1. MetaMaps results copied from original manuscript; other tool versions reported in Methods. 200,114 reads;96 strain design,94 strains with RefSeq species representatives; average read 4,997 bp. Author-reported evaluation · Evaluation metadata: needs review
0.950 Precision Unit: fraction · Direction: higher	Uncertainty: unreported Scored: Not reported · Eligible: Not reported	source checkedLightweight taxonomic profiling of long-read metagenomic datasets with Lemur and Magnet · Table 1:, row Lemur + Magnet, column Precision; XML row3 column3 Source checking is not independent reproduction.
0.938 F1 score Unit: fraction · Direction: higher	Uncertainty: unreported Scored: Not reported · Eligible: Not reported	source checkedLightweight taxonomic profiling of long-read metagenomic datasets with Lemur and Magnet · Table 1:, row Lemur + Magnet, column F1 score; XML row3 column4 Source checking is not independent reproduction.
0.927 Recall Unit: fraction · Direction: higher	Uncertainty: unreported Scored: Not reported · Eligible: Not reported	source checkedLightweight taxonomic profiling of long-read metagenomic datasets with Lemur and Magnet · Table 1:, row Lemur + Magnet, column Recall; XML row3 column2 Source checking is not independent reproduction.
Kraken 2: Species profiling on Dilthey2019 simulated long reads Configuration: Kraken 2Protocol: Species profiling on Dilthey2019 simulated long reads (Long-read taxonomic profiling)Dataset: Species profiling on Dilthey2019 simulated long reads Species-level recall/precision/F 1. MetaMaps results copied from original manuscript; other tool versions reported in Methods. 200,114 reads;96 strain design,94 strains with RefSeq species representatives; average read 4,997 bp. Independent external evaluation · Evaluation metadata: needs review
0.055 Precision Unit: fraction · Direction: higher	Uncertainty: unreported Scored: Not reported · Eligible: Not reported	source checkedLightweight taxonomic profiling of long-read metagenomic datasets with Lemur and Magnet · Table 1:, row Kraken 2, column Precision; XML row8 column3 Source checking is not independent reproduction.
0.976 Recall Unit: fraction · Direction: higher	Uncertainty: unreported Scored: Not reported · Eligible: Not reported	source checkedLightweight taxonomic profiling of long-read metagenomic datasets with Lemur and Magnet · Table 1:, row Kraken 2, column Recall; XML row8 column2 Source checking is not independent reproduction.
0.104 F1 score Unit: fraction · Direction: higher	Uncertainty: unreported Scored: Not reported · Eligible: Not reported	source checkedLightweight taxonomic profiling of long-read metagenomic datasets with Lemur and Magnet · Table 1:, row Kraken 2, column F1 score; XML row8 column4 Source checking is not independent reproduction.
Lemur: Species profiling on Dilthey2019 simulated long reads Configuration: LemurProtocol: Species profiling on Dilthey2019 simulated long reads (Long-read taxonomic profiling)Dataset: Species profiling on Dilthey2019 simulated long reads Species-level recall/precision/F 1. MetaMaps results copied from original manuscript; other tool versions reported in Methods. 200,114 reads;96 strain design,94 strains with RefSeq species representatives; average read 4,997 bp. Author-reported evaluation · Evaluation metadata: needs review
0.703 Precision Unit: fraction · Direction: higher	Uncertainty: unreported Scored: Not reported · Eligible: Not reported	source checkedLightweight taxonomic profiling of long-read metagenomic datasets with Lemur and Magnet · Table 1:, row Lemur, column Precision; XML row2 column3 Source checking is not independent reproduction.
0.808 F1 score Unit: fraction · Direction: higher	Uncertainty: unreported Scored: Not reported · Eligible: Not reported	source checkedLightweight taxonomic profiling of long-read metagenomic datasets with Lemur and Magnet · Table 1:, row Lemur, column F1 score; XML row2 column4 Source checking is not independent reproduction.
0.951 Recall Unit: fraction · Direction: higher	Uncertainty: unreported Scored: Not reported · Eligible: Not reported	source checkedLightweight taxonomic profiling of long-read metagenomic datasets with Lemur and Magnet · Table 1:, row Lemur, column Recall; XML row2 column2 Source checking is not independent reproduction.
Melon: Species profiling on Dilthey2019 simulated long reads Configuration: MelonProtocol: Species profiling on Dilthey2019 simulated long reads (Long-read taxonomic profiling)Dataset: Species profiling on Dilthey2019 simulated long reads Species-level recall/precision/F 1. MetaMaps results copied from original manuscript; other tool versions reported in Methods. 200,114 reads;96 strain design,94 strains with RefSeq species representatives; average read 4,997 bp. Independent external evaluation · Evaluation metadata: needs review
0.946 F1 score Unit: fraction · Direction: higher	Uncertainty: unreported Scored: Not reported · Eligible: Not reported	source checkedLightweight taxonomic profiling of long-read metagenomic datasets with Lemur and Magnet · Table 1:, row Melon, column F1 score; XML row4 column4 Source checking is not independent reproduction.
0.929 Precision Unit: fraction · Direction: higher	Uncertainty: unreported Scored: Not reported · Eligible: Not reported	source checkedLightweight taxonomic profiling of long-read metagenomic datasets with Lemur and Magnet · Table 1:, row Melon, column Precision; XML row4 column3 Source checking is not independent reproduction.
0.963 Recall Unit: fraction · Direction: higher	Uncertainty: unreported Scored: Not reported · Eligible: Not reported	source checkedLightweight taxonomic profiling of long-read metagenomic datasets with Lemur and Magnet · Table 1:, row Melon, column Recall; XML row4 column2 Source checking is not independent reproduction.
Centrifuger: Species profiling on Dilthey2019 simulated long reads Configuration: CentrifugerProtocol: Species profiling on Dilthey2019 simulated long reads (Long-read taxonomic profiling)Dataset: Species profiling on Dilthey2019 simulated long reads Species-level recall/precision/F 1. MetaMaps results copied from original manuscript; other tool versions reported in Methods. 200,114 reads;96 strain design,94 strains with RefSeq species representatives; average read 4,997 bp. Independent external evaluation · Evaluation metadata: needs review
0.774 Recall Unit: fraction · Direction: higher	Uncertainty: unreported Scored: Not reported · Eligible: Not reported	source checkedLightweight taxonomic profiling of long-read metagenomic datasets with Lemur and Magnet · Table 1:, row Centrifuger, column Recall; XML row7 column2 Source checking is not independent reproduction.
0.050 Precision Unit: fraction · Direction: higher	Uncertainty: unreported Scored: Not reported · Eligible: Not reported	source checkedLightweight taxonomic profiling of long-read metagenomic datasets with Lemur and Magnet · Table 1:, row Centrifuger, column Precision; XML row7 column3 Source checking is not independent reproduction.
0.093 F1 score Unit: fraction · Direction: higher	Uncertainty: unreported Scored: Not reported · Eligible: Not reported	source checkedLightweight taxonomic profiling of long-read metagenomic datasets with Lemur and Magnet · Table 1:, row Centrifuger, column F1 score; XML row7 column4 Source checking is not independent reproduction.
MetaMaps: Species profiling on Dilthey2019 simulated long reads Configuration: MetaMapsProtocol: Species profiling on Dilthey2019 simulated long reads (Long-read taxonomic profiling)Dataset: Species profiling on Dilthey2019 simulated long reads Species-level recall/precision/F 1. MetaMaps results copied from original manuscript; other tool versions reported in Methods. 200,114 reads;96 strain design,94 strains with RefSeq species representatives; average read 4,997 bp. Result quoted from another source · Evaluation metadata: needs review
0.862 Precision Unit: fraction · Direction: higher	Uncertainty: unreported Scored: Not reported · Eligible: Not reported	source checkedLightweight taxonomic profiling of long-read metagenomic datasets with Lemur and Magnet · Table 1:, row MetaMaps, column Precision; XML row5 column3 Source checking is not independent reproduction.
1.000 Recall Unit: fraction · Direction: higher	Uncertainty: unreported Scored: Not reported · Eligible: Not reported	source checkedLightweight taxonomic profiling of long-read metagenomic datasets with Lemur and Magnet · Table 1:, row MetaMaps, column Recall; XML row5 column2 Source checking is not independent reproduction.
0.926 F1 score Unit: fraction · Direction: higher	Uncertainty: unreported Scored: Not reported · Eligible: Not reported	source checkedLightweight taxonomic profiling of long-read metagenomic datasets with Lemur and Magnet · Table 1:, row MetaMaps, column F1 score; XML row5 column4 Source checking is not independent reproduction.

Evidence table

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.

6 evidence rows matching the loaded filters

Claims, original sources and review scope · Release 2026-09-17-d277315f7d76
Property and statement	Original source and location	Review and provenance
attributes.reported_population No value recorded Context-only references	Lightweight taxonomic profiling of long-read metagenomic datasets with Lemur and Magnet Original source ↗ Table 1:: Recall, Species profiling on Dilthey2019 simulated long reads Version: PMC archival version PMC11185576.2 Retrieved: 2026-09-17T07:56:16.880151+00:00	missing or unspecified No individual claim review recorded Audit details Field: `attributes.reported_population` Source artifact SHA-256: `4afb9195da447916eb6f733816e3640741c7ade08ea8920d205c3be7b3cce27a` Hash scope: Exact retrieved primary paper artifact bytes. Inspected artifact
attributes.source_locator Table 1:: Recall, Species profiling on Dilthey2019 simulated long reads Context-only references	Lightweight taxonomic profiling of long-read metagenomic datasets with Lemur and Magnet Original source ↗ Table 1:: Recall, Species profiling on Dilthey2019 simulated long reads Version: PMC archival version PMC11185576.2 Retrieved: 2026-09-17T07:56:16.880151+00:00	not individually reviewed No individual claim review recorded Audit details Field: `attributes.source_locator` Source artifact SHA-256: `4afb9195da447916eb6f733816e3640741c7ade08ea8920d205c3be7b3cce27a` Hash scope: Exact retrieved primary paper artifact bytes. Inspected artifact
attributes.split 200,114 reads;96 strain design,94 strains with RefSeq species representatives; average read 4,997 bp. Context-only references	Lightweight taxonomic profiling of long-read metagenomic datasets with Lemur and Magnet Original source ↗ Table 1:: Recall, Species profiling on Dilthey2019 simulated long reads Version: PMC archival version PMC11185576.2 Retrieved: 2026-09-17T07:56:16.880151+00:00	not individually reviewed No individual claim review recorded Audit details Field: `attributes.split` Source artifact SHA-256: `4afb9195da447916eb6f733816e3640741c7ade08ea8920d205c3be7b3cce27a` Hash scope: Exact retrieved primary paper artifact bytes. Inspected artifact
attributes.subset Species profiling on Dilthey2019 simulated long reads Context-only references	Lightweight taxonomic profiling of long-read metagenomic datasets with Lemur and Magnet Original source ↗ Table 1:: Recall, Species profiling on Dilthey2019 simulated long reads Version: PMC archival version PMC11185576.2 Retrieved: 2026-09-17T07:56:16.880151+00:00	not individually reviewed No individual claim review recorded Audit details Field: `attributes.subset` Source artifact SHA-256: `4afb9195da447916eb6f733816e3640741c7ade08ea8920d205c3be7b3cce27a` Hash scope: Exact retrieved primary paper artifact bytes. Inspected artifact
description Dataset and cohort used in the cited comparison. Dataset population counts do not establish successful prediction coverage. Context-only references	Lightweight taxonomic profiling of long-read metagenomic datasets with Lemur and Magnet Original source ↗ Table 1:: Recall, Species profiling on Dilthey2019 simulated long reads Version: PMC archival version PMC11185576.2 Retrieved: 2026-09-17T07:56:16.880151+00:00	not individually reviewed No individual claim review recorded Audit details Field: `description` Source artifact SHA-256: `4afb9195da447916eb6f733816e3640741c7ade08ea8920d205c3be7b3cce27a` Hash scope: Exact retrieved primary paper artifact bytes. Inspected artifact
name Species profiling on Dilthey2019 simulated long reads Context-only references	Lightweight taxonomic profiling of long-read metagenomic datasets with Lemur and Magnet Original source ↗ Table 1:: Recall, Species profiling on Dilthey2019 simulated long reads Version: PMC archival version PMC11185576.2 Retrieved: 2026-09-17T07:56:16.880151+00:00	not individually reviewed No individual claim review recorded Audit details Field: `name` Source artifact SHA-256: `4afb9195da447916eb6f733816e3640741c7ade08ea8920d205c3be7b3cce27a` Hash scope: Exact retrieved primary paper artifact bytes. Inspected artifact

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Sources and history

Release 2026-09-17-d277315f7d76 · Record review: needs review

Lightweight taxonomic profiling of long-read metagenomic datasets with Lemur and Magnet · Original source · PMC archival version PMC11185576.2

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Technical metadata and extraction receipts

Stable ID: paper-dataset-e8eb310c5d40e647ac

areas: microbes-communities
tasks: Long-read taxonomic profiling
split: 200,114 reads;96 strain design,94 strains with RefSeq species representatives; average read 4,997 bp.
subset: Species profiling on Dilthey2019 simulated long reads
reported population: Not reported
source locator: Table 1:: Recall, Species profiling on Dilthey2019 simulated long reads
missing metadata: manifest: unextracted; scored count: unreported
entity classification: review date: 2026-09-17; rationale: This record identifies a biological data collection or source-labelled evaluation cohort. Keep its dataset identity; split, assay, taxonomic level, candidate restrictions and comparison context remain attributes rather than automatically becoming new entity kinds.; source ids: part2-lemur-magnet-2024; source locator: Table 1:: Recall, Species profiling on Dilthey2019 simulated long reads; ambiguities: None recorded

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