kemalandClaude Opus 5.5
ccf7f4f156
Fixed θ windows mislabelled compressed/asymmetric loci (2-cluster loci: 1418 vs 186 errors). Now 1/2/3-component mixtures chosen by BIC, labelled by HWE goodness of fit plus weak position and gap priors, split clusters merged. GSE165845 chr22 vs 1000G 30x (240 arrays): concordance 99.44 % (v1 99.27 %, vendor EGT 99.46 %), NRD 1.30 % (1.89 %, 1.23 %), call rate 99.61 %. docs/validation/V2_arraytrain.md, K-030; plan §12, CLI-038. Co-Authored-By: Claude Opus 5.5 <[email protected]> Claude-Session: https://claude.ai/code/session_01814GKVzZVL3FuF3DeiZXhv
28 lines
759 B
JSON
28 lines
759 B
JSON
{
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"dataset": "GSE165845 GSA v1 (C2 build-38 BPM); train = replicate 3 (120 arrays), evaluate = replicates 1-2 (240 arrays)",
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"truth": "1000G NYGC 30x phased panel, chr22 SNVs on the array",
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"egt_v1_fixed_windows": {
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"chrom": "22",
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"samples": 240,
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"truth_sites": 8278,
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"call_rate": 0.9947053434807118,
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"concordance": 0.9926765907658587,
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"nrd": 0.018946074088334416
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},
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"egt_v2_bic_hwe": {
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"chrom": "22",
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"samples": 240,
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"truth_sites": 8278,
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"call_rate": 0.9960623540307643,
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"concordance": 0.9943676222304063,
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"nrd": 0.013034595450012981
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},
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"vendor_gsa_v1_c1_egt": {
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"chrom": "22",
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"samples": 240,
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"truth_sites": 8278,
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"call_rate": 0.9915201940887493,
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"concordance": 0.9945781643910259,
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"nrd": 0.012251034586575862
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}
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} |