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Revert "fix: re-track convert_to_se.R, only gitignore prepare_data/da… pkgdown #177: Commit 079fe1e pushed by paliocha
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fix: re-track convert_to_se.R, only gitignore prepare_data/data/ pkgdown #176: Commit 89055f6 pushed by paliocha
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gitignore: exclude prepare_data/ and docs/superpowers/ pkgdown #175: Commit ede33d4 pushed by paliocha
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Add Obayashi MR reference + explanation to README, add Nextflow pipel… pkgdown #174: Commit 1e4795f pushed by paliocha
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Density sweep: 11 levels from 0.5x-1.5x (eff. density 1.5%-4.5%, midp… pkgdown #173: Commit 54a590d pushed by paliocha
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Fix review #134: guard parallel_test reference in synthesis chunk pkgdown #172: Commit ec6cac4 pushed by paliocha
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Add DeepWiki badge to README pkgdown #171: Commit 11d562f pushed by paliocha
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Revert vignette to b17682e: restore modules/hubs, keep robustness dia… pkgdown #170: Commit 361e595 pushed by paliocha
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Update vignette: defer modules/hubs, enable clique robustness diagnos… pkgdown #169: Commit 2e89173 pushed by paliocha
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Add Phipson & Smyth (2010) reference for empirical p-value correction pkgdown #168: Commit 7da86c8 pushed by paliocha
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Trigger CI: R-CMD-check pkgdown #167: Commit fc78796 pushed by paliocha
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Document clique robustness features, fix CI Rd warning pkgdown #166: Commit b17682e pushed by paliocha
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Fix review #126: add mixed-weight dedup test (q=1, effect=1) pkgdown #165: Commit 08b4f75 pushed by paliocha
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Fix reviews #123 + #125: smoke tests for max_missing_edges, fix stale… pkgdown #164: Commit b966546 pushed by paliocha
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Fix review #122: use >= 0 for Jaccard match guard (not > 0) pkgdown #163: Commit e6b5ddc pushed by paliocha
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Deslop: composite dedup cost, max_missing_edges, shared test fixtures pkgdown #162: Commit e904931 pushed by paliocha
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Deslop: fix schema inconsistency, optimize persistence + noise, stand… pkgdown #161: Commit 4c3c732 pushed by paliocha
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Fix review #120: harden perturbation test assertions for n_matched pkgdown #160: Commit ce26e36 pushed by paliocha
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Fix review #119: perturbation test n_matched, container field naming,… pkgdown #159: Commit 5e020ee pushed by paliocha
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Fix review #117: clique_intensity_test null model and API consistency pkgdown #158: Commit fe7e4d2 pushed by paliocha
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Add clique robustness features: intensity, coherence, perturbation an… pkgdown #157: Commit 089e4e8 pushed by paliocha
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Add vignette rigor improvements: parallel signal test, hub regulatory… pkgdown #156: Commit 0b4b85e pushed by paliocha
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Fix CI: import modifyList, document ... param, fix Rd cross-reference pkgdown #155: Commit 4b182f8 pushed by paliocha
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Fix review #113: thread species_pairs through density_sweep pkgdown #154: Commit bebae40 pushed by paliocha
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Add S3 rcomplex container class for pipeline argument threading pkgdown #153: Commit 12187f8 pushed by paliocha
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