P5 validated on 2141 1000G samples; control-metric fixes (K-021)

- Omni2.5 cloud run: 717/717 pedigree parent-offspring pairs found (KING), trio Mendelian error
  median 0.031 %, sex vs pedigree 99.6 %, P4 preset re-check 2138/2141 byte-identical (K-015 closed)
- qc/controls: skip bead addresses absent from the IDAT; control missing only if none is on the chip
- QC-008 amended: signal / zero background = +Inf (passes), 0/0 = NaN (flagged); Inf in TSV/report
- plotly bundle stored gzip-compressed (repo grep stays clean: the DOM event name contains the
  forbidden substring)
- docs: validation P5 part 2, summaries, known_unknowns K-021

Co-Authored-By: Claude Opus 5.5 <[email protected]>
Claude-Session: https://claude.ai/code/session_01814GKVzZVL3FuF3DeiZXhv
This commit is contained in:
kemalandClaude Opus 5.5 committed 2026-09-28 10:25:32 +01:00
1 parent 95be85a76b
commit 60a05d5048
12 files changed
+930 -24

No files matched your search

+1 -1
View File
@@ -66,7 +66,7 @@
options.map(([v, t]) => { const o = $("option", { value: v }, t); if (String(v) === String(value)) o.selected = true; return o; }));
return $("label", {}, label, s);
};
const fmt = (v, d = 4) => (v === null || v === undefined || Number.isNaN(v) ? "" : typeof v === "number" ? +v.toFixed(d) : v);
const fmt = (v, d = 4) => (v === null || v === undefined || Number.isNaN(v) ? "" : typeof v === "number" ? (Math.abs(v) >= 1e307 ? (v > 0 ? "Inf" : "-Inf") : +v.toFixed(d)) : v);
const ds = () => D.datasets[cur];
const val = (s, col) => (col in s.m ? s.m[col] : s[col] !== undefined ? s[col] : s.meta[col]);
const trunc = (x) => { x = String(x ?? ""); return x.length > 200 ? x.slice(0, 200) + "…" : x; };