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Commits on Dec 10, 2024

• Merge pull request #404 from nf-core/dev

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• Merge pull request #406 from nf-core/fix-kallisto-nac-in-v300

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  fmalmeida

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• include nac conversion workflow

  

  zxBIB Almeida,Felipe (GCBDS) EXTERNAL

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Commits on Dec 9, 2024

• Merge pull request #405 from nf-core/licence-readme

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  apeltzer

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• Improved statement regarding 10X container(s)

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• Merge pull request #403 from nf-core/bump-version

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  grst

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• enable custom pipeline config

  grst

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• bump version and update changelog

  grst

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• Merge pull request #396 from nf-core/289-update-or-remove-universc

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Commits on Dec 4, 2024

• use correct java version in ci

  fmalmeida

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Commits on Dec 3, 2024

• update images

  fmalmeida

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• remove all universc things

  

  zxBIB Almeida,Felipe (GCBDS) EXTERNAL

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• update changelog

  

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Commits on Dec 2, 2024

• Merge pull request #369 from nf-core/standardize-conversion-workflow

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  grst

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  d3d8a6f

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• add .var_names_make_unique() to star code which was missing

  

  zxBIB Almeida,Felipe (GCBDS) EXTERNAL

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Commits on Nov 29, 2024

• avoid fetching star index from iGenomes due version incompatibility

  

  zxBIB Almeida,Felipe (GCBDS) EXTERNAL

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• prettier fix

  fmalmeida

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• update star nf-test snaps

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• update cellranger multi nf-test snaps

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• allow regex to also find cellrangermulti results

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• add metadata

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• add resources control to cellrangermulti testing profile

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• fix anndatar to nf-core container

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• Update modules/local/templates/barcodes.py

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  fmalmeida

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• update alevin snaps

  fmalmeida

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• update kallisto snaps

  fmalmeida

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• Merge branch 'standardize-conversion-workflow' of https://github.com/nf-core/scrnaseq into standardize-conversion-workflow

  fmalmeida

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• update cellranger snaps

  fmalmeida

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• update emptydrops documentation

  

  zxBIB Almeida,Felipe (GCBDS) EXTERNAL

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• add TODO

  

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• update changelog

  

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Commits on Nov 28, 2024

• remove old conversion scripts

  

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• add checkIfExists: true to file loading calls

  

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• current version of star is incompatible with the star index available in igenomes

  

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• correct the parsing of getGenomeAttribute as a nextflow variable, since it is not possible to overwrite params. in the workflow scope

  

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