[FEATURE] module RustQC
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Since May 6, 2026.
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Description
Is your feature request related to a problem? Please describe
When I put the aligned reads and annotation in directly, I got this error:
"RustQC requires that BAM files have duplicates marked (SAM flag 0x400)
but NOT removed. None of the reads examined so far have the duplicate
flag set.
Please run a duplicate-marking tool before using RustQC, for example:
Picard MarkDuplicates: picard MarkDuplicates I=input.bam O=marked.bam M=metrics.txt
samblaster: samtools view -h input.bam | samblaster | samtools view -bS - > marked.bam
sambamba markdup: sambamba markdup input.bam marked.bam"
Describe the solution you'd like
It would be nice to include this prerequisite in the module description:
https://nf-co.re/modules/rustqc/
Thank you,
Describe alternatives you've considered
No response
Additional context
No response
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