daniel1noble / BACE
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coverage: 91.15%. Remained the same
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Merge pull request #12 from daniel1noble/claude/vigilant-mendel-er2e01

Shard sim-reference benchmark by replicate chunk to fit GHA ceiling

3409 of 3740 relevant lines covered (91.15%)

87.3 hits per line

Relevant lines Covered
3740 RELEVANT LINES 3409 COVERED LINES
87.3 HITS PER LINE
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Builds Branch Commit Type Ran Committer Via Coverage
27491558208 main Merge pull request #12 from daniel1noble/claude/vigilant-mendel-er2e01 Shard sim-reference benchmark by replicate chunk to fit GHA ceiling push web-flow github
91.15
27491445757 claude/vigilant-mendel-er2e01 Merge b6c4dea65 into 960d14530 Pull #12 web-flow github
91.18
25929232737 main Add smoke/production mode toggle to sim-reference benchmark workflow Wires a workflow_dispatch `mode` input (default: smoke) to the existing BACE_NITT/BURNIN/THIN/RUNS/NFINAL env-var hooks in the evaluator, and passes `1` as the second CLI arg in... push daniel1noble github
91.15
25929072426 main Reference dataset scripts push daniel1noble github
91.15
25907501234 main Udpated ignore push daniel1noble github
91.15
25362969520 main Bump n_final default 10 -> 50; add simulated-benchmark vignette section Why default n_final = 50: with only 10 imputations the empirical [2.5%, 97.5%] quantile of per-cell imputed values is closer to [min, max] of 10 draws than to a true 95% pred... push daniel1noble github
91.15
25341195972 main Add per-level multinomial Pagel-style lambda to phylo_signal_summary For categorical traits, phylo_signal_summary() now reports both: - H2_* trace-based heritability on MCMCglmm's working scale (existing behaviour, ... push daniel1noble github
91.15
25340715961 main sim_bace: scale default sigmas down for non-gaussian variables When response_type is gaussian, default sigma_species = sigma_residual = 1 is innocuous: the response is on a linear scale. For variables passed through a non-linear link (poisson via... push daniel1noble github
91.17
25339511135 main Re-run accuracy benchmark at n_final=50 — coverage now well-calibrated The single-rep "poor coverage" (~0.62 for gaussian) was a benchmark design artifact, not a BACE problem: with n_final=5 the empirical [2.5%, 97.5%] quantile is essentially [mi... push daniel1noble github
91.16
25338302573 main Per-type accuracy benchmark on simulated data with known truth dev/sim_accuracy_benchmark.R: per-type sweep across all 5 BACE response types {gaussian, poisson, binary, K=3 categorical, K=4 ordinal}. For each, simulates 60 species / 120 cases via... push daniel1noble github
91.16
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