The corrected MFASS baseline combines local sequence composition, allele identity, exon position and conservation in gradient-boosted trees.
Explanatory profile: source reviewed · Automated source review, 2026-09-16. This does not change the review status of its results.
| Property | Description and evidence |
|---|---|
| Sequence features | 3-mer composition in a 21-base assay-oriented windowMFASS v2 pinned rewire artifacts · benchmarks/mfass/src/mfass/run_baseline.py, featurise; results/baseline-kmer-position-v2.json at bee9133b83f3aedaf2bbb9013f1875515845607e |
| Other inputs | Exon-boundary distances, allele identity, phyloP and phastConsMFASS v2 pinned rewire artifacts · benchmarks/mfass/src/mfass/run_baseline.py, featurise; results/baseline-kmer-position-v2.json at bee9133b83f3aedaf2bbb9013f1875515845607e |
| Model type | Not extracted or verified for this record. |
| Known versions | Not extracted or verified for this record. |
| Training data | Not extracted or verified for this record. |
| Context limits | Not extracted or verified for this record. |
| Access | Not extracted or verified for this record. |
| Code licence | Not extracted or verified for this record. |
| Weights licence | Not extracted or verified for this record. |
Schematic of the pinned MFASS configuration; this does not generalise to every member of the model family.
Features use an assay-oriented 21-base window centred on the validated variant position. The model is trained on the fixed MFASS training split, then scores the held-out variants. The corrected orientation is part of the method identity.
MFASS v2 pinned rewire artifacts · benchmarks/mfass/src/mfass/run_baseline.py, featurise; results/baseline-kmer-position-v2.json at bee9133b83f3aedaf2bbb9013f1875515845607eRelease 2026-09-16-d74d282221a9 · 1 evaluation · 3 metric rows. Different protocols are not a single leaderboard.
| Metric and finding | Coverage and uncertainty | Evidence |
|---|---|---|
| Corrected k-mer / position baseline on MFASS v2 Model: Corrected k-mer / position baseline · Benchmark: MFASS v2 · Dataset: MFASS v2 eligible assay cohort Assay-oriented 21 bp k-mer window, exon position, allele identity and conservation features; gradient-boosted trees trained on the MFASS training split. Rewire evaluation · Evaluation metadata: reproduced | ||
| 0.7779498064677238 auroc Unit: fraction · Direction: higher | Uncertainty: Point estimate; see paired-comparison artifacts. Coverage (scored/eligible): 8324/8324 | reproducedMFASS v2 pinned rewire artifacts · benchmarks/mfass/results/baseline-kmer-position-v2.json :: auroc Source checking is not independent reproduction. |
| 0.28641674595892375 average_precision Unit: fraction · Direction: higher | Uncertainty: Point estimate; see paired-comparison artifacts. Coverage (scored/eligible): 8324/8324 | reproducedMFASS v2 pinned rewire artifacts · benchmarks/mfass/results/baseline-kmer-position-v2.json :: average_precision Source checking is not independent reproduction. |
| 0.61 precision_at_100 Unit: fraction · Direction: higher | Uncertainty: Point estimate; see paired-comparison artifacts. Coverage (scored/eligible): 8324/8324 | reproducedMFASS v2 pinned rewire artifacts · benchmarks/mfass/results/baseline-kmer-position-v2.json :: precision_at_100 Source checking is not independent reproduction. |
Inspected the pinned runner README and result configuration with git show. No models were run; existing result and reproduction statuses are unchanged.
Stable record: rewire-model-baseline-kmer-position-v2Release 2026-09-16-d74d282221a9 · Record review: source checked
Stable ID: rewire-model-baseline-kmer-position-v2