All pull requests

Pull requests

• DADA2: consolidate binned-quality learning, histogram export and exact-species repair

  #8839·nekrut opened Oct 31, 2026Contributor·

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  5

• Add Galaxy tool for spatial-continuum (cri_calc)

  #8838·Lukecele opened Oct 31, 2026·

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  7

• Kraken2: accept custom database files from history

  #8837·nekrut opened Oct 30, 2026Contributor·

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  1

• Add native SBDI submission and annotation exporters from AmpliSeq

  #8836·nekrut opened Oct 30, 2026Contributor·

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  1

  10

• Add native QIIME SIDLE wrappers for multiregion amplicon reconstruction

  #8831·nekrut opened Oct 30, 2026Contributor·

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  20

• VSEARCH: add native SINTAX classifier and update suite to 2.32.0

  #8828·nekrut opened Oct 30, 2026Contributor·

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  15

• Updating tools/scanpy from version 1.12.4 to 1.12.5

  #8825·gxydevbot opened Oct 30, 2026Collaborator·

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• Updating tools/ragtag from version 2.1.0 to 2.1.1

  #8824·gxydevbot opened Oct 30, 2026Collaborator·

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• Updating tools/panaroo from version 1.8.0 to 1.8.1

  #8823·gxydevbot opened Oct 30, 2026Collaborator·

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• Updating tools/ncbi_datasets from version 18.39.0 to 18.40.0

  #8822·gxydevbot opened Oct 30, 2026Collaborator·

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• snpsift: fix linter errors

  skip-url-check
  #8820·bernt-matthias opened Oct 30, 2026Contributor·6 of 8 tasks·

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• fastx_toolkit: fix linter errors

  skip-version-check
  #8816·bernt-matthias opened Oct 30, 2026Contributor·6 of 8 tasks·

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• Updating tools/bcftools from version 1.24 to 1.25

  #8813·gxydevbot opened Oct 30, 2026Collaborator·

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• Spapros update 0.1.6

  #8812·pavanvidem opened Oct 29, 2026Member·3 of 8 tasks·

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  4

• swissmodel_modelling_api: single job and batch input modes, 4.0.0

  #8807·bienchen opened Oct 29, 2026Contributor·5 of 8 tasks·

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• Update orthologer to 3.9.2

  ready-for-review
  #8803·ftegenfe opened Oct 28, 2026Contributor·8 tasks·

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  11

• Add RustScenic GRN inference with fitting metadata

  ready-for-review
  #8801·Ekin-Kahraman opened Oct 28, 2026·4 of 8 tasks·

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  2

• Disassembler

  ready-for-review
  #8800·as042 opened Oct 27, 2026Contributor·5 of 8 tasks·

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  25

• Add itBins wrapper

  #8796·paulzierep opened Oct 26, 2026Contributor·

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  7

• Add BinSPreader wrapper

  #8795·paulzierep opened Oct 26, 2026Contributor·

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  3

• idr_download tool: fix and update tool

  ready-for-review
  #8792·rmassei opened Oct 26, 2026·5 of 8 tasks·

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  7

• MaxBin2: handle explicit insufficient-marker no-bin outcome

  #8787·paulzierep opened Oct 24, 2026Contributor·

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  2

• SemiBin: return empty collections when no bins meet the size threshold

  #8786·paulzierep opened Oct 24, 2026Contributor·

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• feat: add trace50 tool

  ready-for-review
  #8783·d-callan opened Oct 23, 2026Contributor·5 of 8 tasks·

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  15

• spotyping: address linter findings

  #8777·bernt-matthias opened Oct 23, 2026Contributor·6 of 8 tasks·

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  1