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Commits on May 14, 2026

• fix(v0.5.5): indel + multi-allelic variant prioritization (#85)

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Commits on May 13, 2026

• fix(v0.5.4): collaborator round 2 — rsID input, LDlink config, AG example IDs (#84)

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Commits on May 12, 2026

• v0.5.3 — collaborator-audit followups (P1-P3 + ranking sweep) (#82)

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Commits on May 11, 2026

• release: bump version to 0.5.2

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• fix(test): equivalence test uses relative-at-peak tolerance (closes #81)

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Commits on May 10, 2026

• Merge pull request #80 from pinellolab/fix/v0.5.1-predict-sliding

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• fix(v0.5.1): chrombpnet predict_sliding TF import + alphagenome_pt 404 noise

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• Merge pull request #78 from pinellolab/fix/post-v040-followups

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• release: bump version to 0.5.0

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Commits on May 9, 2026

• audit: scorched-earth fresh-install verification

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• docs(audit): close the DHS-CDF deferral on the 2026-05-08 audit

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• chore: uniform DHS-augmented chrombpnet CDF on HF + regen SORT1 examples

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• audit: DHS-augmented chrombpnet CDF rebuild + HF upload (744 CHIP rows)

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• docs(normalization): per-layer CDF sampling recipes for new oracles

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• build(backgrounds): auto-fetch DHS vocabulary from HuggingFace

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• build(backgrounds): add --n-dhs-variants / --n-dhs-peaks for chrombpnet CDF

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• audit: 2026-05-08 post-PR-#79-merge handoff for Lorenzo

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• chore(examples): regenerate SORT1 chrombpnet + multi-oracle artefacts

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• feat(viz): unify track-rescale across IGV / matplotlib / CoolBox / notebooks

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Commits on May 8, 2026

• Merge Lorenzo's PR #79 into fix/post-v040-followups

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• Added updated multioracle examples

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• fix: support mixed-resolution tracks and per-track normalization in IGV. Add adaptive downsampling with max pooling for 1bp tracks (ChromBPNet), per-bin size calculation based on native resolution,…

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Commits on May 6, 2026

• fix: genome concurrent decompression race + stale ChromBPNet health probe

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• feat: add chorus cleanup command

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• feat: add --setup-timeout to chorus setup

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• fix: CHIP strand suffix mismatch in normalization + alphagenome_pt CDF alias

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Commits on May 2, 2026

• new logo

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Commits on Apr 30, 2026

• fix(health): recognise slim HF mirror for chrombpnet + add alphagenome_pt probe (#77)

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• Adjust logo width in README.md

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• Update README.md

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• Remove project title from README

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• new logo

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• audit(linux-cuda): v30 PR #60 spot-check — F1 fix holds, no findings

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• fix(cdf-rebuild): protect interim NPZ + honour CUDA_VISIBLE_DEVICES; streamline README top (#76)

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• update readme

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