Published somatic caller comparison; transcribed, not reproduced.
1 evaluation · 7 results. Different protocols are not a single leaderboard.
Protocol: SEQC2 HCC1395 library preparation and DNA input, SNV F1 (Sahraeian et al. 2022 Table S4) · Dataset: SEQC2 HCC1395/HCC1395BL library-preparation replicates (TruSeq-Nano and Nextera Flex, 1-100 ng DNA)
Sorted by F1 (SNVs, average over the 6 library pairs as printed) (higher is better). The best value in each column is highlighted. Decimals are rounded for display; each value links to the printed value and its source.
| Tested configuration | F1 (SNVs, average over the 6 library pairs as printed) | F1 (SNVs, tumour LBP_Nextera_T_100ng with normal LBP_Nextera_N_100ng) | F1 (SNVs, tumour LBP_Nextera_T_10ng with normal LBP_Nextera_N_10ng) | F1 (SNVs, tumour LBP_Nextera_T_1ng with normal LBP_Nextera_N_1ng) | F1 (SNVs, tumour LBP_TruSeq_T_100ng with normal LBP_TruSeq_N_100ng) | F1 (SNVs, tumour LBP_TruSeq_T_10ng with normal LBP_TruSeq_N_10ng) | F1 (SNVs, tumour LBP_TruSeq_T_1ng with normal LBP_TruSeq_N_1ng) |
|---|---|---|---|---|---|---|---|
| MuTect2 4.beta.6 (Sahraeian et al. 2022)Evaluation | 72.7% | 89.8% | 89.7% | 86% | 86.5% | 80.3% | 3.7% |
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SEQC2 HCC1395 library preparation and DNA input, SNV F1 (Sahraeian et al. 2022 Table S4)
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36 evidence rows matching the loaded filters
| Property and statement | Original source and location | Review and provenance |
|---|---|---|
| Comparison: adaptation Not reported Context-only references | Achieving robust somatic mutation detection with deep learning models derived from reference data sets of a cancer sample Additional file 2 Table S4, column 'MuTect2', SNVs section Shared locator for this statement’s cited sources; not a separate locator for each citation. Version: Genome Biology 23:12, published 2022-01-07; PMC8740374 full-text XML | missing or unspecified No individual claim review recorded independent paper Audit detailsField: Source artifact SHA-256: Hash scope: Hash scope not separately documented; inspect source record |
| Comparison: adaptation Not reported Context-only references | Sahraeian et al. 2022, Additional file 2: Supplementary Tables S1-S10 (13059_2021_2592_MOESM2_ESM.pdf) Additional file 2 Table S4, column 'MuTect2', SNVs section Shared locator for this statement’s cited sources; not a separate locator for each citation. Version: 13059_2021_2592_MOESM2_ESM.pdf | missing or unspecified No individual claim review recorded independent paper Audit detailsField: Source artifact SHA-256: Hash scope: Hash scope not separately documented; inspect source record |
| Comparison: aggregation Per library pair, plus the printed average over 6 Context-only references | Achieving robust somatic mutation detection with deep learning models derived from reference data sets of a cancer sample Additional file 2 Table S4, column 'MuTect2', SNVs section Shared locator for this statement’s cited sources; not a separate locator for each citation. Version: Genome Biology 23:12, published 2022-01-07; PMC8740374 full-text XML | not individually reviewed No individual claim review recorded independent paper Audit detailsField: Source artifact SHA-256: Hash scope: Hash scope not separately documented; inspect source record |
| Comparison: aggregation Per library pair, plus the printed average over 6 Context-only references | Sahraeian et al. 2022, Additional file 2: Supplementary Tables S1-S10 (13059_2021_2592_MOESM2_ESM.pdf) Additional file 2 Table S4, column 'MuTect2', SNVs section Shared locator for this statement’s cited sources; not a separate locator for each citation. Version: 13059_2021_2592_MOESM2_ESM.pdf | not individually reviewed No individual claim review recorded independent paper Audit detailsField: Source artifact SHA-256: Hash scope: Hash scope not separately documented; inspect source record |
| Comparison: budget Not reported Context-only references | Achieving robust somatic mutation detection with deep learning models derived from reference data sets of a cancer sample Additional file 2 Table S4, column 'MuTect2', SNVs section Shared locator for this statement’s cited sources; not a separate locator for each citation. Version: Genome Biology 23:12, published 2022-01-07; PMC8740374 full-text XML | missing or unspecified No individual claim review recorded independent paper Audit detailsField: Source artifact SHA-256: Hash scope: Hash scope not separately documented; inspect source record |
| Comparison: budget Not reported Context-only references | Sahraeian et al. 2022, Additional file 2: Supplementary Tables S1-S10 (13059_2021_2592_MOESM2_ESM.pdf) Additional file 2 Table S4, column 'MuTect2', SNVs section Shared locator for this statement’s cited sources; not a separate locator for each citation. Version: 13059_2021_2592_MOESM2_ESM.pdf | missing or unspecified No individual claim review recorded independent paper Audit detailsField: Source artifact SHA-256: Hash scope: Hash scope not separately documented; inspect source record |
| Comparison: dataset version Not reported Context-only references | Achieving robust somatic mutation detection with deep learning models derived from reference data sets of a cancer sample Additional file 2 Table S4, column 'MuTect2', SNVs section Shared locator for this statement’s cited sources; not a separate locator for each citation. Version: Genome Biology 23:12, published 2022-01-07; PMC8740374 full-text XML | missing or unspecified No individual claim review recorded independent paper Audit detailsField: Source artifact SHA-256: Hash scope: Hash scope not separately documented; inspect source record |
| Comparison: dataset version Not reported Context-only references | Sahraeian et al. 2022, Additional file 2: Supplementary Tables S1-S10 (13059_2021_2592_MOESM2_ESM.pdf) Additional file 2 Table S4, column 'MuTect2', SNVs section Shared locator for this statement’s cited sources; not a separate locator for each citation. Version: 13059_2021_2592_MOESM2_ESM.pdf | missing or unspecified No individual claim review recorded independent paper Audit detailsField: Source artifact SHA-256: Hash scope: Hash scope not separately documented; inspect source record |
| Comparison: inputs Tumour and matched normal WGS BAM files (BWA-MEM) Context-only references | Achieving robust somatic mutation detection with deep learning models derived from reference data sets of a cancer sample Additional file 2 Table S4, column 'MuTect2', SNVs section Shared locator for this statement’s cited sources; not a separate locator for each citation. Version: Genome Biology 23:12, published 2022-01-07; PMC8740374 full-text XML | not individually reviewed No individual claim review recorded independent paper Audit detailsField: Source artifact SHA-256: Hash scope: Hash scope not separately documented; inspect source record |
| Comparison: inputs Tumour and matched normal WGS BAM files (BWA-MEM) Context-only references | Sahraeian et al. 2022, Additional file 2: Supplementary Tables S1-S10 (13059_2021_2592_MOESM2_ESM.pdf) Additional file 2 Table S4, column 'MuTect2', SNVs section Shared locator for this statement’s cited sources; not a separate locator for each citation. Version: 13059_2021_2592_MOESM2_ESM.pdf | not individually reviewed No individual claim review recorded independent paper Audit detailsField: Source artifact SHA-256: Hash scope: Hash scope not separately documented; inspect source record |
Release 2026-10-10-cbb3da59bc08 · Record review: source checked
Stable ID: somatic-neusomatic-20261010-eval-sahraeian2022-mutect2-library-prep-snv