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nf-core / exoseq

Please consider using/contributing to https://github.com/nf-core/sarek
http://nf-co.re
MIT License
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Move FastQC into trimGalore #15

Closed marchoeppner closed 6 years ago

marchoeppner commented 6 years ago

Move the fastqc analysis into trimgalore using the built-in --fastqc option. This way we get metrics about the actually used data rather than the initial raw data (which sequencing centers usually include anyway)

ewels commented 6 years ago

NB: If I ever get around to it, I hope to add a feature to group certain samples (especially FastQC) for read pairs and pre/post-trimming.

Code is mostly already written (see https://github.com/ewels/MultiQC/pull/576 and https://github.com/ewels/MultiQC/issues/542), just need to get around to finishing it up and testing it.

apeltzer commented 6 years ago

Resolved :-)