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nf-core/rnaseq v3.6 - Platinum Platypus
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@drpatelh drpatelh released this 04 Mar 13:46
· 875 commits to master since this release
3.6
7106bd7
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Learn about vigilant mode.

[3.6] - 2022-03-04

Enhancements & fixes

  • nf-core/tools#1415 - Make --outdir a mandatory parameter
  • [#734] - Is a vulnerable picard still used ? log4j vulnerability
  • [#744] - Auto-detect and raise error if CSI is required for BAM indexing
  • [#750] - Optionally ignore R1 / R2 after UMI extraction process
  • [#752] - How to set publishing mode for all processes?
  • [#753] - Add warning when user provides --transcript_fasta
  • [#754] - DESeq2 QC issue linked to --count_col parameter
  • [#755] - Rename RSEM_PREPAREREFERENCE_TRANSCRIPTS process
  • [#759] - Empty lines in samplesheet.csv cause a crash
  • [#769] - Do not run RSeQC tin.py by default

Parameters

Old parameter New parameter
--publish_dir_mode
--umi_discard_read

NB: Parameter has been updated if both old and new parameter information is present.

NB: Parameter has been added if just the new parameter information is present.

NB: Parameter has been removed if new parameter information isn't present.

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