nf-core/rnaseq 3.6

nf-core/rnaseq v3.6 - Platinum Platypus

on GitHub

[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

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.