All pull requests

Pull requests

• chore: prepare 0.11.0 — pin engine v0.24.1, trim Cargo.toml, refresh docs

  #284·mwiewior opened Nov 10, 2026Contributor·10 tasks done·

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  11

• perf: pin coding-exon grid balance and verify BGZF seams

  #280·mwiewior opened Nov 7, 2026Contributor·

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• perf: reduce repeated VCF input setup for grid workers

  #277·mwiewior opened Nov 7, 2026Contributor·

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  10

• fix(deps): clear 114 of 115 Dependabot alerts and require Python 3.11

  #276·mwiewior opened Nov 6, 2026Contributor·

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  17

• ci: /parity-wgs probe of master 3c27c0c (HG002 + ClinVar) — do not merge

  #273·mwiewior opened Nov 2, 2026Contributor·

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  4

• build(deps): bump certifi from 2026.7.22 to 2026.10.18 in /porting-tests

  dependenciespython:uv
  #265·dependabot[bot] opened Oct 26, 2026Bot·

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• build(deps): bump virtualenv from 21.14.5 to 21.14.9

  dependenciespython:uv
  #262·dependabot[bot] opened Oct 22, 2026Bot·

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• build(deps-dev): bump jupyterlab from 4.6.3 to 4.6.4

  dependenciespython:uv
  #250·dependabot[bot] opened Oct 18, 2026Bot·

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• build(deps): bump tornado from 6.5.8 to 6.5.9

  dependenciespython:uv
  #249·dependabot[bot] opened Oct 18, 2026Bot·

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• build(deps): bump urllib3 from 2.6.3 to 2.8.0

  dependenciespython:uv
  #248·dependabot[bot] opened Oct 18, 2026Bot·

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• perf: compare vepyr, vep-rs and fastVEP against Ensembl VEP

  #197·mwiewior opened Oct 17, 2026Contributor·5 tasks done·

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• perf: Polars integration benchmarks for the paper supplement (vepyr 0.10.0)

  #195·mwiewior opened Oct 15, 2026Contributor·3 tasks done·

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• ci: gate releases on whole-genome parity

  #194·mwiewior opened Oct 15, 2026Contributor·2 of 4 tasks·

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  2

• feat(plugins): accept plugin directories and several paths as plugin_cache_root

  #178·mwiewior opened Oct 11, 2026Contributor·

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  7

• chore(nf-core): sync vepyr/annotate mirror to bioconda vepyr 0.9.2

  #177·mwiewior opened Oct 11, 2026Contributor·2 tasks done·

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• test: /parity smoke test (do not merge)

  #175·mwiewior opened Oct 10, 2026Contributor·7 tasks·

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• perf: Polars integration benchmarks vs filter_vep (chr22)

  #133·mwiewior opened Sep 26, 2026Contributor·

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• docs: variation-lookup figure and the script that measures it

  #108·mwiewior opened Sep 12, 2026Contributor·

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• chore(bioconda): pin the released 0.6.0 sdist digest

  #91·mwiewior opened Sep 8, 2026Contributor·

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• feat: plugin cache QA profile tool (profile_plugin_cache.py)

  #76·mwiewior opened Sep 5, 2026Contributor·

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• fix(annotate): honor list pick_order instead of silently dropping it (#29)

  #36·sitekwb opened Jul 26, 2026Collaborator·

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• ci: bump actions off deprecated Node.js 20 runtime

  #26·mwiewior opened Jul 5, 2026Contributor·

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• Add VEP concordance harness

  #16·tgambin opened May 23, 2026Collaborator·

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  4