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@ybdong919 ybdong919 released this 28 Sep 19:29
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v1.1.0
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Learn about vigilant mode.

The pipeline is used to analyze NGS data in fastq format from bacterial genome. It is a Nextflow version of the Flaq_amr pipeline (FL-BPHL's standard bacterial assembly pipeline with AMR detection). Compared with Flaq_amr, some additional analyses for Legionella, Shigella, group A strep, Klebsiella, Salmonella, E.coli, and plasmid are added. For Neisseria and H.influenzae species, clonal complex and serotype prediction are automatically added in Sanibel.

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