Files
obikmer/benchmark/test_transition_sankoff_params.yaml
T
Eric Coissac 1f9c6388eb Introduce compare_sparse CLI tool to verify index consistency
Adds a new binary that validates bit-level consistency between dense and sparse K-mer index representations by sampling slots across partitions and reporting discrepancies. Refactors sibling cache matrix initialization into a centralized factory method to simplify control flow and standardize error handling. Introduces diagnostic configurations, benchmark scripts, and an ignored test case to support k-mer resolution analysis.
2026-08-17 11:16:42 +02:00

168 lines
2.9 KiB
YAML

ratio_ceiling: 0.5
cardinality_transitions:
- from: 0
to: 0
count: 115955295
probability: 0.8297007290571883
- from: 0
to: 1
count: 12901663
probability: 0.0923159153460836
- from: 0
to: 2
count: 10519367
probability: 0.07526975347801175
- from: 0
to: 3
count: 339782
probability: 0.0024312591600108434
- from: 0
to: 4
count: 39459
probability: 0.00028234295870548727
- from: 1
to: 0
count: 12901663
probability: 0.9007741539906029
- from: 1
to: 1
count: 973491
probability: 0.0679676357956696
- from: 1
to: 2
count: 444884
probability: 0.031061112720426456
- from: 1
to: 3
count: 2739
probability: 0.00019123274323474897
- from: 1
to: 4
count: 84
probability: 5.864750066344985e-6
- from: 2
to: 0
count: 10519367
probability: 0.9590597257562327
- from: 2
to: 1
count: 444884
probability: 0.04056045644508228
- from: 2
to: 2
count: 3796
probability: 0.00034608458084699006
- from: 2
to: 3
count: 327
probability: 0.000029812870900149037
- from: 2
to: 4
count: 43
probability: 3.920346937940087e-6
- from: 3
to: 0
count: 339782
probability: 0.9908029486551426
- from: 3
to: 1
count: 2739
probability: 0.007986913010007698
- from: 3
to: 2
count: 327
probability: 0.0009535306879417734
- from: 3
to: 3
count: 58
probability: 0.00016912776728019222
- from: 3
to: 4
count: 30
probability: 0.00008747987962768563
- from: 4
to: 0
count: 39459
probability: 0.9957604663487016
- from: 4
to: 1
count: 84
probability: 0.0021197668256491787
- from: 4
to: 2
count: 43
probability: 0.0010851187321775557
- from: 4
to: 3
count: 30
probability: 0.0007570595805889924
- from: 4
to: 4
count: 11
probability: 0.0002775885128826305
composition_transitions:
- from: 'A'
to: 'A'
count: 169043
probability: 0.49442957633191476
- from: 'A'
to: 'C'
count: 27672
probability: 0.08093712982055894
- from: 'A'
to: 'G'
count: 124160
probability: 0.36315242983957063
- from: 'A'
to: 'T'
count: 21020
probability: 0.06148086400795566
- from: 'C'
to: 'A'
count: 27672
probability: 0.08651690662664728
- from: 'C'
to: 'C'
count: 145183
probability: 0.4539167409213838
- from: 'C'
to: 'G'
count: 23425
probability: 0.07323859994684925
- from: 'C'
to: 'T'
count: 123565
probability: 0.3863277525051197
- from: 'G'
to: 'A'
count: 124160
probability: 0.3846082361177367
- from: 'G'
to: 'C'
count: 23425
probability: 0.07256320820761906
- from: 'G'
to: 'G'
count: 148125
probability: 0.4588441927749658
- from: 'G'
to: 'T'
count: 27112
probability: 0.08398436289967846
- from: 'T'
to: 'A'
count: 21020
probability: 0.06258131551760583
- from: 'T'
to: 'C'
count: 123565
probability: 0.3678810776371534
- from: 'T'
to: 'G'
count: 27112
probability: 0.08071858355439246
- from: 'T'
to: 'T'
count: 164186
probability: 0.4888190232908483