Protocol

Simulated long-read fusion detection, 400 fusions at three depths and three read identities (Dorney et al. 2026)

Per-caller false and true calls, precision, recall and F1 against simulated fusions, calls with at least two supporting reads.

6 evaluations · 250 results

Overview

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

6 recorded evaluations, 250 metric rows. A comparison chart has not yet been validated for these results. The table retains the individual findings and their sources.

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Results

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All evaluations

6 evaluations · 250 results. Different protocols are not a single leaderboard.

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Tested model or methodProtocolDatasetEvaluation setupMetricEvidence origin

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Exact evaluated configurations and original reported results
Tested configuration	Protocol and dataset	Finding	Evidence and details
Configuration: CTAT-LR-Fusion (Dorney et al. 2026)	Protocol: Simulated long-read fusion detection, 400 fusions at three depths and three read identities (Dorney et al. 2026) Dataset: Badread simulated ONT transcriptomes with 400 Fusim fusion transcripts (Dorney et al. 2026)	0.205 F1 (simulated fusions, 100GB depth, 85% mean read identity, denominator 400) fraction · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Independent external evaluation · Source checked Methods, coverage and source CTAT-LR-Fusion on simulated long-read fusions (Dorney et al. 2026) rna-fusion-longread-20261011-protocol-simulated-fusions Aggregation: Not reported A comprehensive benchmark of transcriptome-wide fusion detection using long-read RNA sequencing; LRFusionBenchmark repository (Dorney et al.): result tables and run scripts · stat_summary.tsv, row depth '100GB', Sequence_Identity '85%', Algorithm 'CTAT-LR-Fusion', column 'F1'
Configuration: CTAT-LR-Fusion (Dorney et al. 2026)	Protocol: Simulated long-read fusion detection, 400 fusions at three depths and three read identities (Dorney et al. 2026) Dataset: Badread simulated ONT transcriptomes with 400 Fusim fusion transcripts (Dorney et al. 2026)	72 False positives (simulated fusions, 100GB depth, 85% mean read identity, denominator 400) count · lower Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Independent external evaluation · Source checked Methods, coverage and source CTAT-LR-Fusion on simulated long-read fusions (Dorney et al. 2026) rna-fusion-longread-20261011-protocol-simulated-fusions Aggregation: Not reported A comprehensive benchmark of transcriptome-wide fusion detection using long-read RNA sequencing; LRFusionBenchmark repository (Dorney et al.): result tables and run scripts · stat_summary.tsv, row depth '100GB', Sequence_Identity '85%', Algorithm 'CTAT-LR-Fusion', column 'False_Point'
Configuration: CTAT-LR-Fusion (Dorney et al. 2026)	Protocol: Simulated long-read fusion detection, 400 fusions at three depths and three read identities (Dorney et al. 2026) Dataset: Badread simulated ONT transcriptomes with 400 Fusim fusion transcripts (Dorney et al. 2026)	0.429 Precision (simulated fusions, 100GB depth, 85% mean read identity, denominator 400) fraction · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Independent external evaluation · Source checked Methods, coverage and source CTAT-LR-Fusion on simulated long-read fusions (Dorney et al. 2026) rna-fusion-longread-20261011-protocol-simulated-fusions Aggregation: Not reported A comprehensive benchmark of transcriptome-wide fusion detection using long-read RNA sequencing; LRFusionBenchmark repository (Dorney et al.): result tables and run scripts · stat_summary.tsv, row depth '100GB', Sequence_Identity '85%', Algorithm 'CTAT-LR-Fusion', column 'Precision'
Configuration: CTAT-LR-Fusion (Dorney et al. 2026)	Protocol: Simulated long-read fusion detection, 400 fusions at three depths and three read identities (Dorney et al. 2026) Dataset: Badread simulated ONT transcriptomes with 400 Fusim fusion transcripts (Dorney et al. 2026)	0.135 Recall (simulated fusions, 100GB depth, 85% mean read identity, denominator 400) fraction · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Independent external evaluation · Source checked Methods, coverage and source CTAT-LR-Fusion on simulated long-read fusions (Dorney et al. 2026) rna-fusion-longread-20261011-protocol-simulated-fusions Aggregation: Not reported A comprehensive benchmark of transcriptome-wide fusion detection using long-read RNA sequencing; LRFusionBenchmark repository (Dorney et al.): result tables and run scripts · stat_summary.tsv, row depth '100GB', Sequence_Identity '85%', Algorithm 'CTAT-LR-Fusion', column 'Recall'
Configuration: CTAT-LR-Fusion (Dorney et al. 2026)	Protocol: Simulated long-read fusion detection, 400 fusions at three depths and three read identities (Dorney et al. 2026) Dataset: Badread simulated ONT transcriptomes with 400 Fusim fusion transcripts (Dorney et al. 2026)	54 True positives (simulated fusions, 100GB depth, 85% mean read identity, denominator 400) count · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Independent external evaluation · Source checked Methods, coverage and source CTAT-LR-Fusion on simulated long-read fusions (Dorney et al. 2026) rna-fusion-longread-20261011-protocol-simulated-fusions Aggregation: Not reported A comprehensive benchmark of transcriptome-wide fusion detection using long-read RNA sequencing; LRFusionBenchmark repository (Dorney et al.): result tables and run scripts · stat_summary.tsv, row depth '100GB', Sequence_Identity '85%', Algorithm 'CTAT-LR-Fusion', column 'True_Point'
Configuration: CTAT-LR-Fusion (Dorney et al. 2026)	Protocol: Simulated long-read fusion detection, 400 fusions at three depths and three read identities (Dorney et al. 2026) Dataset: Badread simulated ONT transcriptomes with 400 Fusim fusion transcripts (Dorney et al. 2026)	0.292 F1 (simulated fusions, 100GB depth, 90% mean read identity, denominator 400) fraction · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Independent external evaluation · Source checked Methods, coverage and source CTAT-LR-Fusion on simulated long-read fusions (Dorney et al. 2026) rna-fusion-longread-20261011-protocol-simulated-fusions Aggregation: Not reported A comprehensive benchmark of transcriptome-wide fusion detection using long-read RNA sequencing; LRFusionBenchmark repository (Dorney et al.): result tables and run scripts · stat_summary.tsv, row depth '100GB', Sequence_Identity '90%', Algorithm 'CTAT-LR-Fusion', column 'F1'
Configuration: CTAT-LR-Fusion (Dorney et al. 2026)	Protocol: Simulated long-read fusion detection, 400 fusions at three depths and three read identities (Dorney et al. 2026) Dataset: Badread simulated ONT transcriptomes with 400 Fusim fusion transcripts (Dorney et al. 2026)	109 False positives (simulated fusions, 100GB depth, 90% mean read identity, denominator 400) count · lower Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Independent external evaluation · Source checked Methods, coverage and source CTAT-LR-Fusion on simulated long-read fusions (Dorney et al. 2026) rna-fusion-longread-20261011-protocol-simulated-fusions Aggregation: Not reported A comprehensive benchmark of transcriptome-wide fusion detection using long-read RNA sequencing; LRFusionBenchmark repository (Dorney et al.): result tables and run scripts · stat_summary.tsv, row depth '100GB', Sequence_Identity '90%', Algorithm 'CTAT-LR-Fusion', column 'False_Point'
Configuration: CTAT-LR-Fusion (Dorney et al. 2026)	Protocol: Simulated long-read fusion detection, 400 fusions at three depths and three read identities (Dorney et al. 2026) Dataset: Badread simulated ONT transcriptomes with 400 Fusim fusion transcripts (Dorney et al. 2026)	0.444 Precision (simulated fusions, 100GB depth, 90% mean read identity, denominator 400) fraction · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Independent external evaluation · Source checked Methods, coverage and source CTAT-LR-Fusion on simulated long-read fusions (Dorney et al. 2026) rna-fusion-longread-20261011-protocol-simulated-fusions Aggregation: Not reported A comprehensive benchmark of transcriptome-wide fusion detection using long-read RNA sequencing; LRFusionBenchmark repository (Dorney et al.): result tables and run scripts · stat_summary.tsv, row depth '100GB', Sequence_Identity '90%', Algorithm 'CTAT-LR-Fusion', column 'Precision'
Configuration: CTAT-LR-Fusion (Dorney et al. 2026)	Protocol: Simulated long-read fusion detection, 400 fusions at three depths and three read identities (Dorney et al. 2026) Dataset: Badread simulated ONT transcriptomes with 400 Fusim fusion transcripts (Dorney et al. 2026)	0.217 Recall (simulated fusions, 100GB depth, 90% mean read identity, denominator 400) fraction · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Independent external evaluation · Source checked Methods, coverage and source CTAT-LR-Fusion on simulated long-read fusions (Dorney et al. 2026) rna-fusion-longread-20261011-protocol-simulated-fusions Aggregation: Not reported A comprehensive benchmark of transcriptome-wide fusion detection using long-read RNA sequencing; LRFusionBenchmark repository (Dorney et al.): result tables and run scripts · stat_summary.tsv, row depth '100GB', Sequence_Identity '90%', Algorithm 'CTAT-LR-Fusion', column 'Recall'
Configuration: CTAT-LR-Fusion (Dorney et al. 2026)	Protocol: Simulated long-read fusion detection, 400 fusions at three depths and three read identities (Dorney et al. 2026) Dataset: Badread simulated ONT transcriptomes with 400 Fusim fusion transcripts (Dorney et al. 2026)	87 True positives (simulated fusions, 100GB depth, 90% mean read identity, denominator 400) count · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Independent external evaluation · Source checked Methods, coverage and source CTAT-LR-Fusion on simulated long-read fusions (Dorney et al. 2026) rna-fusion-longread-20261011-protocol-simulated-fusions Aggregation: Not reported A comprehensive benchmark of transcriptome-wide fusion detection using long-read RNA sequencing; LRFusionBenchmark repository (Dorney et al.): result tables and run scripts · stat_summary.tsv, row depth '100GB', Sequence_Identity '90%', Algorithm 'CTAT-LR-Fusion', column 'True_Point'
Configuration: CTAT-LR-Fusion (Dorney et al. 2026)	Protocol: Simulated long-read fusion detection, 400 fusions at three depths and three read identities (Dorney et al. 2026) Dataset: Badread simulated ONT transcriptomes with 400 Fusim fusion transcripts (Dorney et al. 2026)	0.349 F1 (simulated fusions, 100GB depth, 95% mean read identity, denominator 400) fraction · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Independent external evaluation · Source checked Methods, coverage and source CTAT-LR-Fusion on simulated long-read fusions (Dorney et al. 2026) rna-fusion-longread-20261011-protocol-simulated-fusions Aggregation: Not reported A comprehensive benchmark of transcriptome-wide fusion detection using long-read RNA sequencing; LRFusionBenchmark repository (Dorney et al.): result tables and run scripts · stat_summary.tsv, row depth '100GB', Sequence_Identity '95%', Algorithm 'CTAT-LR-Fusion', column 'F1'
Configuration: CTAT-LR-Fusion (Dorney et al. 2026)	Protocol: Simulated long-read fusion detection, 400 fusions at three depths and three read identities (Dorney et al. 2026) Dataset: Badread simulated ONT transcriptomes with 400 Fusim fusion transcripts (Dorney et al. 2026)	134 False positives (simulated fusions, 100GB depth, 95% mean read identity, denominator 400) count · lower Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Independent external evaluation · Source checked Methods, coverage and source CTAT-LR-Fusion on simulated long-read fusions (Dorney et al. 2026) rna-fusion-longread-20261011-protocol-simulated-fusions Aggregation: Not reported A comprehensive benchmark of transcriptome-wide fusion detection using long-read RNA sequencing; LRFusionBenchmark repository (Dorney et al.): result tables and run scripts · stat_summary.tsv, row depth '100GB', Sequence_Identity '95%', Algorithm 'CTAT-LR-Fusion', column 'False_Point'
Configuration: CTAT-LR-Fusion (Dorney et al. 2026)	Protocol: Simulated long-read fusion detection, 400 fusions at three depths and three read identities (Dorney et al. 2026) Dataset: Badread simulated ONT transcriptomes with 400 Fusim fusion transcripts (Dorney et al. 2026)	0.457 Precision (simulated fusions, 100GB depth, 95% mean read identity, denominator 400) fraction · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Independent external evaluation · Source checked Methods, coverage and source CTAT-LR-Fusion on simulated long-read fusions (Dorney et al. 2026) rna-fusion-longread-20261011-protocol-simulated-fusions Aggregation: Not reported A comprehensive benchmark of transcriptome-wide fusion detection using long-read RNA sequencing; LRFusionBenchmark repository (Dorney et al.): result tables and run scripts · stat_summary.tsv, row depth '100GB', Sequence_Identity '95%', Algorithm 'CTAT-LR-Fusion', column 'Precision'
Configuration: CTAT-LR-Fusion (Dorney et al. 2026)	Protocol: Simulated long-read fusion detection, 400 fusions at three depths and three read identities (Dorney et al. 2026) Dataset: Badread simulated ONT transcriptomes with 400 Fusim fusion transcripts (Dorney et al. 2026)	0.282 Recall (simulated fusions, 100GB depth, 95% mean read identity, denominator 400) fraction · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Independent external evaluation · Source checked Methods, coverage and source CTAT-LR-Fusion on simulated long-read fusions (Dorney et al. 2026) rna-fusion-longread-20261011-protocol-simulated-fusions Aggregation: Not reported A comprehensive benchmark of transcriptome-wide fusion detection using long-read RNA sequencing; LRFusionBenchmark repository (Dorney et al.): result tables and run scripts · stat_summary.tsv, row depth '100GB', Sequence_Identity '95%', Algorithm 'CTAT-LR-Fusion', column 'Recall'
Configuration: CTAT-LR-Fusion (Dorney et al. 2026)	Protocol: Simulated long-read fusion detection, 400 fusions at three depths and three read identities (Dorney et al. 2026) Dataset: Badread simulated ONT transcriptomes with 400 Fusim fusion transcripts (Dorney et al. 2026)	113 True positives (simulated fusions, 100GB depth, 95% mean read identity, denominator 400) count · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Independent external evaluation · Source checked Methods, coverage and source CTAT-LR-Fusion on simulated long-read fusions (Dorney et al. 2026) rna-fusion-longread-20261011-protocol-simulated-fusions Aggregation: Not reported A comprehensive benchmark of transcriptome-wide fusion detection using long-read RNA sequencing; LRFusionBenchmark repository (Dorney et al.): result tables and run scripts · stat_summary.tsv, row depth '100GB', Sequence_Identity '95%', Algorithm 'CTAT-LR-Fusion', column 'True_Point'
Configuration: CTAT-LR-Fusion (Dorney et al. 2026)	Protocol: Simulated long-read fusion detection, 400 fusions at three depths and three read identities (Dorney et al. 2026) Dataset: Badread simulated ONT transcriptomes with 400 Fusim fusion transcripts (Dorney et al. 2026)	0.141 F1 (simulated fusions, 10GB depth, 85% mean read identity, denominator 397) fraction · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Independent external evaluation · Source checked Methods, coverage and source CTAT-LR-Fusion on simulated long-read fusions (Dorney et al. 2026) rna-fusion-longread-20261011-protocol-simulated-fusions Aggregation: Not reported A comprehensive benchmark of transcriptome-wide fusion detection using long-read RNA sequencing; LRFusionBenchmark repository (Dorney et al.): result tables and run scripts · stat_summary.tsv, row depth '10GB', Sequence_Identity '85%', Algorithm 'CTAT-LR-Fusion', column 'F1'
Configuration: CTAT-LR-Fusion (Dorney et al. 2026)	Protocol: Simulated long-read fusion detection, 400 fusions at three depths and three read identities (Dorney et al. 2026) Dataset: Badread simulated ONT transcriptomes with 400 Fusim fusion transcripts (Dorney et al. 2026)	51 False positives (simulated fusions, 10GB depth, 85% mean read identity, denominator 397) count · lower Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Independent external evaluation · Source checked Methods, coverage and source CTAT-LR-Fusion on simulated long-read fusions (Dorney et al. 2026) rna-fusion-longread-20261011-protocol-simulated-fusions Aggregation: Not reported A comprehensive benchmark of transcriptome-wide fusion detection using long-read RNA sequencing; LRFusionBenchmark repository (Dorney et al.): result tables and run scripts · stat_summary.tsv, row depth '10GB', Sequence_Identity '85%', Algorithm 'CTAT-LR-Fusion', column 'False_Point'
Configuration: CTAT-LR-Fusion (Dorney et al. 2026)	Protocol: Simulated long-read fusion detection, 400 fusions at three depths and three read identities (Dorney et al. 2026) Dataset: Badread simulated ONT transcriptomes with 400 Fusim fusion transcripts (Dorney et al. 2026)	0.4 Precision (simulated fusions, 10GB depth, 85% mean read identity, denominator 397) fraction · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Independent external evaluation · Source checked Methods, coverage and source CTAT-LR-Fusion on simulated long-read fusions (Dorney et al. 2026) rna-fusion-longread-20261011-protocol-simulated-fusions Aggregation: Not reported A comprehensive benchmark of transcriptome-wide fusion detection using long-read RNA sequencing; LRFusionBenchmark repository (Dorney et al.): result tables and run scripts · stat_summary.tsv, row depth '10GB', Sequence_Identity '85%', Algorithm 'CTAT-LR-Fusion', column 'Precision'
Configuration: CTAT-LR-Fusion (Dorney et al. 2026)	Protocol: Simulated long-read fusion detection, 400 fusions at three depths and three read identities (Dorney et al. 2026) Dataset: Badread simulated ONT transcriptomes with 400 Fusim fusion transcripts (Dorney et al. 2026)	0.0856 Recall (simulated fusions, 10GB depth, 85% mean read identity, denominator 397) fraction · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Independent external evaluation · Source checked Methods, coverage and source CTAT-LR-Fusion on simulated long-read fusions (Dorney et al. 2026) rna-fusion-longread-20261011-protocol-simulated-fusions Aggregation: Not reported A comprehensive benchmark of transcriptome-wide fusion detection using long-read RNA sequencing; LRFusionBenchmark repository (Dorney et al.): result tables and run scripts · stat_summary.tsv, row depth '10GB', Sequence_Identity '85%', Algorithm 'CTAT-LR-Fusion', column 'Recall'
Configuration: CTAT-LR-Fusion (Dorney et al. 2026)	Protocol: Simulated long-read fusion detection, 400 fusions at three depths and three read identities (Dorney et al. 2026) Dataset: Badread simulated ONT transcriptomes with 400 Fusim fusion transcripts (Dorney et al. 2026)	34 True positives (simulated fusions, 10GB depth, 85% mean read identity, denominator 397) count · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Independent external evaluation · Source checked Methods, coverage and source CTAT-LR-Fusion on simulated long-read fusions (Dorney et al. 2026) rna-fusion-longread-20261011-protocol-simulated-fusions Aggregation: Not reported A comprehensive benchmark of transcriptome-wide fusion detection using long-read RNA sequencing; LRFusionBenchmark repository (Dorney et al.): result tables and run scripts · stat_summary.tsv, row depth '10GB', Sequence_Identity '85%', Algorithm 'CTAT-LR-Fusion', column 'True_Point'
Configuration: CTAT-LR-Fusion (Dorney et al. 2026)	Protocol: Simulated long-read fusion detection, 400 fusions at three depths and three read identities (Dorney et al. 2026) Dataset: Badread simulated ONT transcriptomes with 400 Fusim fusion transcripts (Dorney et al. 2026)	0.278 F1 (simulated fusions, 10GB depth, 90% mean read identity, denominator 400) fraction · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Independent external evaluation · Source checked Methods, coverage and source CTAT-LR-Fusion on simulated long-read fusions (Dorney et al. 2026) rna-fusion-longread-20261011-protocol-simulated-fusions Aggregation: Not reported A comprehensive benchmark of transcriptome-wide fusion detection using long-read RNA sequencing; LRFusionBenchmark repository (Dorney et al.): result tables and run scripts · stat_summary.tsv, row depth '10GB', Sequence_Identity '90%', Algorithm 'CTAT-LR-Fusion', column 'F1'
Configuration: CTAT-LR-Fusion (Dorney et al. 2026)	Protocol: Simulated long-read fusion detection, 400 fusions at three depths and three read identities (Dorney et al. 2026) Dataset: Badread simulated ONT transcriptomes with 400 Fusim fusion transcripts (Dorney et al. 2026)	70 False positives (simulated fusions, 10GB depth, 90% mean read identity, denominator 400) count · lower Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Independent external evaluation · Source checked Methods, coverage and source CTAT-LR-Fusion on simulated long-read fusions (Dorney et al. 2026) rna-fusion-longread-20261011-protocol-simulated-fusions Aggregation: Not reported A comprehensive benchmark of transcriptome-wide fusion detection using long-read RNA sequencing; LRFusionBenchmark repository (Dorney et al.): result tables and run scripts · stat_summary.tsv, row depth '10GB', Sequence_Identity '90%', Algorithm 'CTAT-LR-Fusion', column 'False_Point'
Configuration: CTAT-LR-Fusion (Dorney et al. 2026)	Protocol: Simulated long-read fusion detection, 400 fusions at three depths and three read identities (Dorney et al. 2026) Dataset: Badread simulated ONT transcriptomes with 400 Fusim fusion transcripts (Dorney et al. 2026)	0.521 Precision (simulated fusions, 10GB depth, 90% mean read identity, denominator 400) fraction · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Independent external evaluation · Source checked Methods, coverage and source CTAT-LR-Fusion on simulated long-read fusions (Dorney et al. 2026) rna-fusion-longread-20261011-protocol-simulated-fusions Aggregation: Not reported A comprehensive benchmark of transcriptome-wide fusion detection using long-read RNA sequencing; LRFusionBenchmark repository (Dorney et al.): result tables and run scripts · stat_summary.tsv, row depth '10GB', Sequence_Identity '90%', Algorithm 'CTAT-LR-Fusion', column 'Precision'
Configuration: CTAT-LR-Fusion (Dorney et al. 2026)	Protocol: Simulated long-read fusion detection, 400 fusions at three depths and three read identities (Dorney et al. 2026) Dataset: Badread simulated ONT transcriptomes with 400 Fusim fusion transcripts (Dorney et al. 2026)	0.19 Recall (simulated fusions, 10GB depth, 90% mean read identity, denominator 400) fraction · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Independent external evaluation · Source checked Methods, coverage and source CTAT-LR-Fusion on simulated long-read fusions (Dorney et al. 2026) rna-fusion-longread-20261011-protocol-simulated-fusions Aggregation: Not reported A comprehensive benchmark of transcriptome-wide fusion detection using long-read RNA sequencing; LRFusionBenchmark repository (Dorney et al.): result tables and run scripts · stat_summary.tsv, row depth '10GB', Sequence_Identity '90%', Algorithm 'CTAT-LR-Fusion', column 'Recall'
Configuration: CTAT-LR-Fusion (Dorney et al. 2026)	Protocol: Simulated long-read fusion detection, 400 fusions at three depths and three read identities (Dorney et al. 2026) Dataset: Badread simulated ONT transcriptomes with 400 Fusim fusion transcripts (Dorney et al. 2026)	76 True positives (simulated fusions, 10GB depth, 90% mean read identity, denominator 400) count · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Independent external evaluation · Source checked Methods, coverage and source CTAT-LR-Fusion on simulated long-read fusions (Dorney et al. 2026) rna-fusion-longread-20261011-protocol-simulated-fusions Aggregation: Not reported A comprehensive benchmark of transcriptome-wide fusion detection using long-read RNA sequencing; LRFusionBenchmark repository (Dorney et al.): result tables and run scripts · stat_summary.tsv, row depth '10GB', Sequence_Identity '90%', Algorithm 'CTAT-LR-Fusion', column 'True_Point'

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A comprehensive benchmark of transcriptome-wide fusion detection using long-read RNA sequencing · Original source · bioRxiv preprint version 1, posted 2026-08-12; JATS XML
LRFusionBenchmark repository (Dorney et al.): result tables and run scripts · Original source · Git commit 83e629fed3098881079fd9ac1c8bc13478ce69ed (pushed 2026-08-25); files: Figures/Input_dataframes/stat_summary.tsv, Figures/Input_dataframes/counts_SGNex_summary.tsv.gz, Fusions/runtools/Run_GFSLGF.sh, Fusions/runtools/RunJAFFAL.sh, Fusions/runtools/RunCTAT-LR-fusion.sh, Fusions/runtools/RunGFSeeker.sh, SimulatedData/Data_Analysis_Scripts/Precision_Recall_ReadSupp_stats.R, CellLineData/SGNex_DiscoveryNRecall.R

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Technical metadata and extraction receipts

Stable ID: rna-fusion-longread-20261011-protocol-simulated-fusions

areas: rna-transcriptomes
contexts: clinical_research
protocol: A call is a true positive only if both partner genes (Ensembl IDs, correct chromosome for paralogues) match a simulated fusion; partial recalls count as false positives. Recall = TP / simulated fusions present (Spiked_Number); precision = TP / (TP + FP); F1 their harmonic mean. Calls need at least two supporting reads.
version: Repository commit 83e629fed309, Figures/Input_dataframes/stat_summary.tsv
metric: f1-score
limitations: Independent benchmark: the authors developed none of the six callers (Competing interests: none). Preprint, not peer reviewed.; Caller versions for CTAT-LR-Fusion and GFSeeker are not stated.; Simulated reads with synthetic fusions, not tumour RNA; most simulated fusions are not cancer drivers.; At 1 Gb the denominator (Spiked_Number) is 187 to 208 rather than 400, and at 10 Gb and 85% identity it is 397; the source does not explain why. Some callers have no row at 1 Gb (no calls).; Results prose gives false-call counts (GFSeeker 632, FusionSeeker 519, JAFFAL 106, CTAT-LR-Fusion 38) that do not match any row of the table; the scenario or filter they refer to is not stated.; Single simulation per scenario; no interval estimates. The FDR and Sensitivity columns repeat 1 minus precision and recall and are not recorded.
source locator: Methods 'Benchmark evaluation criteria'; repository Precision_Recall_ReadSupp_stats.R lines 1-27; stat_summary.tsv

Related records

uses data: Badread simulated ONT transcriptomes with 400 Fusim fusion transcripts (Dorney et al. 2026)
assessment: CTAT-LR-Fusion on simulated long-read fusions (Dorney et al. 2026)
assessment: FusionSeeker on simulated long-read fusions (Dorney et al. 2026)
assessment: Genion on simulated long-read fusions (Dorney et al. 2026)
assessment: GFSeeker on simulated long-read fusions (Dorney et al. 2026)
assessment: JAFFAL on simulated long-read fusions (Dorney et al. 2026)
assessment: LongGF on simulated long-read fusions (Dorney et al. 2026)
assessed by: Select a tumour RNA fusion-detection workflow

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