Merge BWA and Samtools steps

nf-core / exoseq

Please consider using/contributing to https://github.com/nf-core/sarek

http://nf-co.re

MIT License

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Closed marchoeppner closed 6 years ago

marchoeppner commented 6 years ago

Merge Samtools into the BWA step using pipes to immediately produce a sorted CRAM (or BAM) file and index.

apeltzer commented 6 years ago

Done!