Code

fix: batch correction#89

Code

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cmeesters merged 20 commits intomainsnakemake-workflows/transcriptome-differential-expression:mainfrom feat/bath_correctionsnakemake-workflows/transcriptome-differential-expression:feat/bath_correctionCopy head branch name to clipboardSep 16, 2024

+6-5

Commits

Commits on Aug 26, 2024

• feat: providing ngs-test-data

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  cc3ce6b

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• fix: deleted own old test data

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  43c64f3

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Commits on Sep 13, 2024

• feat: allowing for batch correction

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  cdbf34a

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• feat: renaming 'batch_effect' to 'batch'

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  3ad9bf6

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• fix: linter did not accout for latest changes

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  dc420dc

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• feat: actual consideration of the batch effect in the DE script

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  795d235

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• fix: attempting with a mini default profile#

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  91ddb34

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• fix: test with workflow-profile flag

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  059146a

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• fix: added missing unzip package to curl.env

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  34a34bc

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• fix: typo

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  093db9e

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• fix: added missing design_factors

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  22c0a40

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• fix: removed old test data

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  d45ca7e

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• fix: only considering one confounding variable during CI tests

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  57886ee

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• Merge branch 'feat/CI-tests' into feat/bath_correction

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Commits on Sep 16, 2024

• fix: renamed and added ncbi-datasets-cli as a package to env/reference.yml

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  bfda313

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• feat: replaced curl downloads wtih ncbi-datasets-cli download by accession number to avoid unstable URLs

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  44812ca

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• fix: corrected typos

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  72a0448

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• fix: untested - new data in test config

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  7c8e243

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• fix: corrected typos - after resolving merge conflict

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  d106fde

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• fix: gnarf - formatting

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