demultiplex
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Add somalier to identify sample swaps
Description of feature
We recently found somalier quite useful to uncover sample swaps etc. Could be nice to include this by default.
Output: relatedness matrix. To be included as heatmap in multiqc report.
CC @apeltzer
Would be good to have the *groups.tsv also shared in the outputs so that one can investigate
Hmm, maybe trickier: Needs several assumptions around data, e.g. organism type, sites files and mapped files.
Yeah, I think you'd want to include a tool that works on fastq files, not bam files. ntsm is an option that is more recent than ngscheckmate and may be more maintained.