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4 Commits
Author SHA1 Message Date
kemalandClaude Opus 5.5 6cbac9ee06 CN: final full-cohort cloud validation (GSE165845, CYTO-041/042 defaults)
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360 arrays vs NYGC 30x SV: all samples OK (K-027 gate fix), PASS precision
DEL 44 % / DUP 57 % (first run 39 % / 34 % with filters ignored), 61 % without
the one excess_events array; rare DEL sensitivity 30 %; LOH replicated 85 %.
m7g.4xlarge spot, 17 min. docs/validation/V2_cn.md, K-027.

Co-Authored-By: Claude Opus 5.5 <[email protected]>
Claude-Session: https://claude.ai/code/session_01814GKVzZVL3FuF3DeiZXhv
 2026-09-29 23:04:16 +01:00
kemalandClaude Opus 5.5 8c425182c3 V2 CN: CYTO-042 results (precision up, mosaic calls halved); pi_run reports process memory without page cache
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Co-Authored-By: Claude Opus 5.5 <[email protected]>
Claude-Session: https://claude.ai/code/session_01814GKVzZVL3FuF3DeiZXhv
 2026-09-29 12:20:40 +01:00
kemalandClaude Opus 5.5 1c73f3954b V2 CN validation: Pi tuning rounds, CYTO-041 effect, common-CNV sensitivity limit (K-027)
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Co-Authored-By: Claude Opus 5.5 <[email protected]>
Claude-Session: https://claude.ai/code/session_01814GKVzZVL3FuF3DeiZXhv
 2026-09-29 11:11:14 +01:00
kemalandClaude Opus 5.5 07a4caff51 v2 CN: real-data validation vs NYGC 30x SVs (interim), noise gate on normalised LRR (K-027)
ci / test (3.12) (push) Failing after 9s
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ci / test (3.13) (push) Failing after 11s
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GSE165845 360 arrays: constitutional DEL/DUP calls 77/74 % in the NYGC SV truth, LOH
reproduced across replicates 74 %; mosaic calls are mostly false positives (12-23 %),
sensitivity for 25 kb-1 Mb events 7-13 % at QUAL >= 20. All samples had been flagged
SampleQuality by the summary logr_dev (cluster-file mismatch); the gate now uses the SD
of the LRR after the batch reference. Validation script: --ignore-filter.

Co-Authored-By: Claude Opus 5.5 <[email protected]>
Claude-Session: https://claude.ai/code/session_01814GKVzZVL3FuF3DeiZXhv
 2026-09-29 07:42:06 +01:00