kemalandClaude Opus 5.5 19bc6ca986 CN: noise-corrected BAF split and complete-loss MF (CYTO-041); Pi tuning harness ...

Mosaic fraction from the BAF split now subtracts the heterozygous BAF noise (median |BAF-0.5| of unsplit
hets = 0.6745 sigma_b), and a mosaic loss lacking its expected heterozygotes gets MF 1 and is promoted to a
constitutional DEL (CYTO-020). Adds scripts/v2/cn_tune.sh + cn_tune_report.py (GSE165845 rounds on the Pi).

Co-Authored-By: Claude Opus 5.5 <[email protected]>
Claude-Session: https://claude.ai/code/session_01814GKVzZVL3FuF3DeiZXhv

2026-09-29 10:30:12 +01:00

..

cn_synthetic_eval.py

v2 CN: synthetic implant evaluation (CYTO-022); reference GTC discovery follows symlinks

2026-09-29 01:30:07 +01:00

cn_tune_report.py

CN: noise-corrected BAF split and complete-loss MF (CYTO-041); Pi tuning harness

2026-09-29 10:30:12 +01:00

cn_tune.sh

CN: noise-corrected BAF split and complete-loss MF (CYTO-041); Pi tuning harness

2026-09-29 10:30:12 +01:00

cn_validate_truth.py

v2 CN: real-data validation vs NYGC 30x SVs (interim), noise gate on normalised LRR (K-027)

2026-09-29 07:42:06 +01:00

methyl_oracle_compare.py

methylation: combine_neg option; oracle compares both background variants and logs sesame's negative controls

2026-09-29 00:36:44 +01:00

sesame_oracle.R

methylation: combine_neg option; oracle compares both background variants and logs sesame's negative controls

2026-09-29 00:36:44 +01:00